| .. |
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abacas
|
Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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abricate
|
add module for abricate (#1280)
|
2022-02-18 18:00:21 -07:00 |
|
adapterremoval
|
Refactor adapterremoval (#1491)
|
2022-04-04 21:40:35 +02:00 |
|
adapterremovalfixprefix
|
Add AdapterRemovalFixPrefix (#1424)
|
2022-03-21 11:26:12 +01:00 |
|
agrvate
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
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allelecounter
|
Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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ampir
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Add file name collision check + TSV output
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2022-06-10 12:54:39 +02:00 |
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amplify/predict
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add module AMPlify (#1498)
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2022-04-20 11:53:26 +02:00 |
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amps
|
Untar unzip meta (#1408)
|
2022-03-21 14:49:28 +01:00 |
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amrfinderplus
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Amrfinderplus: add db-version to versions.yml (#1899)
|
2022-07-19 09:52:36 +02:00 |
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antismash
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Apply suggestions from code review
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2022-05-12 15:28:19 +02:00 |
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ariba
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add module for ariba (#1731)
|
2022-06-15 10:18:31 -06:00 |
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arriba
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Update Arriba to 2.3.0 (#1827)
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2022-06-29 14:39:13 +02:00 |
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artic
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Bump tool versions for modules required in viralrecon (#1859)
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2022-07-07 14:48:04 +01:00 |
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ascat
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Added output files to ASCAT (#1820)
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2022-06-28 14:45:57 +02:00 |
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assemblyscan
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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ataqv
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Ataqv mkarv (#1857)
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2022-07-07 22:40:31 +02:00 |
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atlas
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New Module: atlas/recal (#1915)
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2022-07-22 15:36:53 +02:00 |
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bakta
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update bakta to latest version (v1.4.0) (#1428)
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2022-03-24 10:49:17 -06:00 |
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bamaligncleaner
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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bamcmp
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bamcmp (#1244)
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2022-02-02 16:38:41 +00:00 |
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bamtools
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Merge remote-tracking branch 'origin' into motus_profile
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2022-05-05 09:41:13 -04:00 |
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bamutil/trimbam
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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bandage/image
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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bbmap
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New module - BBMap clumpify (#1978)
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2022-09-05 08:23:08 +02:00 |
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bcftools
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update for bcftools merge (#1908)
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2022-07-20 11:22:51 +02:00 |
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bcl2fastq
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Module/bcl2fastq (#1883)
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2022-07-14 13:18:21 +02:00 |
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bclconvert
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bump bclconvert version (#1806)
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2022-06-24 07:14:42 +02:00 |
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bedtools
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added bedtools split
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2022-05-17 14:24:32 +02:00 |
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biobambam
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bamsormadup: add extra test case, fix single file input (#1905)
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2022-07-19 13:52:37 +02:00 |
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biscuit
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Add core Biscuit tools (#1354)
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2022-03-14 09:34:22 -04:00 |
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bismark
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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blast
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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bowtie
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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bowtie2
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add PE sorted test
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2022-05-13 19:16:50 +02:00 |
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bracken
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Add bracken/combinebrackenoutputs (#2022)
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2022-09-07 09:18:21 +02:00 |
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busco
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Update busco to v5.4.3 and tar small files (#1970)
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2022-08-30 10:25:01 +02:00 |
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bwa
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Samtools version update (#1507)
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2022-04-11 14:26:28 +02:00 |
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bwamem2
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Added support for meta in bwamem2/index (#1921)
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2022-07-26 21:48:47 +01:00 |
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bwameth
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Fix formatting in yaml files, add yamllint config (#1279)
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2022-02-15 11:15:27 +00:00 |
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cat
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add stub for cat/fastq (#1943)
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2022-08-09 09:18:37 +02:00 |
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cellranger
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Remove empty file md5sum
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2022-06-10 11:53:28 +02:00 |
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centrifuge
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Update module: Use report insted of results for centrifuge/kreport (#1929)
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2022-07-27 14:24:06 +02:00 |
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checkm/lineagewf
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Fix formatting in yaml files, add yamllint config (#1279)
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2022-02-15 11:15:27 +00:00 |
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chromap
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Samtools version update (#1507)
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2022-04-11 14:26:28 +02:00 |
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clonalframeml
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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cmseq/polymut
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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cnvkit
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added fasta_fai as input + changed if statements
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2022-06-02 12:57:50 +02:00 |
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cnvpytor
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combine multiple pytor
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2022-05-05 23:59:12 +02:00 |
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controlfreec
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Fix Controlfreec: Add stub runs to test single sample input & make conda work with R scripts (#1504)
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2022-04-08 11:43:40 +02:00 |
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cooler
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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csvtk
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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custom
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Upgraded getchromsizes to support meta and output the gzi index (#2046)
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2022-09-12 13:17:13 +01:00 |
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cutadapt
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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damageprofiler
|
Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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dastool
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Update DASTool to 1.1.4 (#1471)
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2022-04-01 11:33:07 +02:00 |
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dedup
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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deeparg
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Deeparg singularity container fix 2 (#1406)
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2022-03-18 16:21:55 +01:00 |
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deepbgc
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new module: deepbgc/pipeline (#2014)
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2022-09-07 14:59:01 +02:00 |
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deeptools
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changed container + add cram2bam conversion
|
2022-06-02 10:38:05 +02:00 |
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deepvariant
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Update version & add intervals usage (#1214)
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2022-01-17 16:40:31 +01:00 |
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delly/call
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Another update to delly/call (#2011)
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2022-09-05 16:06:56 +02:00 |
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diamond
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Update DIAMOND module to output log file (#1879)
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2022-07-14 16:18:28 +02:00 |
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dragmap
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Fix formatting in yaml files, add yamllint config (#1279)
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2022-02-15 11:15:27 +00:00 |
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dragonflye
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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dshbio
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Update dsh-bio to version 2.0.7, add support for compressed GFA 1.0 format (#1207)
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2022-01-17 09:24:40 +00:00 |
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ectyper
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Fix formatting in yaml files, add yamllint config (#1279)
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2022-02-15 11:15:27 +00:00 |
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eido
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Add eido/convert module (#2051)
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2022-09-13 12:17:29 -04:00 |
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elprep
|
Merge remote-tracking branch 'origin' into motus_profile
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2022-05-05 09:41:13 -04:00 |
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emmtyper
|
Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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ensemblvep
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update ensemblvep to 106.1 and cache to 106 (#1876)
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2022-07-13 13:43:03 +02:00 |
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entrezdirect
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new (fixed) module: entrezdirect/esearch (#1927)
|
2022-07-26 09:07:38 -06:00 |
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epang
|
epang: Output gzipped jplace (#2037)
|
2022-09-09 09:54:03 +02:00 |
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expansionhunter
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add stub to modules used in raredisease pipeline (#1206)
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2022-03-28 17:48:39 +02:00 |
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faqcs
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Faqcs patch to add tests for --debug output (#1368)
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2022-03-02 08:53:05 -05:00 |
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fargene
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takes gunzip out of fargene main.nf (#1090)
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2021-11-29 14:32:23 +01:00 |
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fastani
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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fastawindows
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New module: fasta_windows (#1956)
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2022-09-09 08:41:38 +01:00 |
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fastk
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Add FastK/Merge (#1828)
|
2022-06-29 18:04:36 +02:00 |
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fastp
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Fix duplicated input in single-end fastp command (#2034)
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2022-09-09 11:08:52 +02:00 |
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fastqc
|
Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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fastqscan
|
Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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fasttree
|
Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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ffq
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Add ffq module (#1842)
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2022-07-01 08:59:13 +02:00 |
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fgbio
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Fgbio/fastqtobam (#1980)
|
2022-09-05 11:57:55 +02:00 |
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filtlong
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Update filtlong module to output log file (#1873)
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2022-07-12 17:05:31 +02:00 |
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flash
|
Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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flye
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Add new module: Flye (#1164)
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2022-06-30 22:45:55 +02:00 |
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fq/lint
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Added fq/lint module (#1968)
|
2022-08-24 10:20:39 +02:00 |
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freebayes
|
Update intervals (#1278)
|
2022-02-10 10:34:22 +01:00 |
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gamma/gamma
|
fixed test.yml
|
2022-05-24 19:27:09 -04:00 |
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gappa/examinegraft
|
Add gappa/examinegraft (#2035)
|
2022-09-09 09:26:41 +02:00 |
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gatk
|
Add GATK indelrealigner tests
|
2022-06-08 21:14:08 +02:00 |
|
gatk4
|
new module gatk4/collectsvevidence (#2039)
|
2022-09-09 10:58:47 +02:00 |
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gecco/run
|
Add gecco/run module (#1790)
|
2022-06-22 13:43:45 +02:00 |
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genescopefk
|
Add GeneScopeFK (#1781)
|
2022-06-14 20:49:06 +02:00 |
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genmap
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
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genmod
|
update options (#1959)
|
2022-08-22 16:26:05 +02:00 |
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genomescope2
|
Update tests/modules/genomescope2/test.yml
|
2022-05-13 11:27:42 +02:00 |
|
genrich
|
Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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gffread
|
Replace remaining task.ext.suffix with task.ext.prefix (#1117)
|
2021-12-07 15:00:43 +01:00 |
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glimpse/chunk
|
Creation of Glimpse Chunk (#1985)
|
2022-09-01 10:01:49 +02:00 |
|
glnexus
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
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goat/taxonsearch
|
Add module: goat/taxonsearch (#1866)
|
2022-08-18 08:34:58 -06:00 |
|
graphmap2
|
Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
|
gstama
|
New Module: gstama/polyacleanup (#1468)
|
2022-03-31 09:11:51 -04:00 |
|
gtdbtk/classifywf
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
gubbins
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
gunc
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
gunzip
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
gvcftools/extractvariants
|
added gvcftools/extractvariants (#1924)
|
2022-07-25 13:30:35 +02:00 |
|
hamronization
|
Add module hamronization/abricate (#1925)
|
2022-07-26 12:55:53 +02:00 |
|
haplocheck
|
fix: string interpolation and test input access
|
2022-06-08 09:08:59 -03:00 |
|
haplogrep2/classify
|
Add haplogrep2 (#2030)
|
2022-09-14 14:58:02 +02:00 |
|
happy
|
Merge remote-tracking branch 'origin' into motus_profile
|
2022-05-05 09:41:13 -04:00 |
|
hicap
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
hifiasm
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
hisat2
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
hmmcopy
|
hmmcopy/mapCounter (#1175)
|
2021-12-17 15:39:50 +00:00 |
|
hmmer
|
Make hmmer/hmmalign output files with correct prefix (#2067)
|
2022-09-15 14:06:18 +02:00 |
|
hmtnote
|
Update main.nf
|
2022-05-16 15:20:15 +00:00 |
|
homer
|
Fix homer/maketagdirectory output collision (#1456)
|
2022-03-27 03:17:42 +00:00 |
|
hpsuissero
|
add module for hpsuisero (#1331)
|
2022-02-27 17:58:35 -07:00 |
|
ichorcna
|
Prettier (#1405)
|
2022-03-18 14:27:50 +01:00 |
|
idr
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
imputeme/vcftoprs
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
instrain/profile
|
Instrain profile (#1822)
|
2022-06-30 18:44:41 +02:00 |
|
iqtree
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
ismapper
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
isoseq3
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
ivar
|
Patch fix artic/minion and ivar/variants modules (#1326)
|
2022-02-18 17:36:09 +00:00 |
|
jupyternotebook
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
kaiju
|
Add KAIJU2KRONA module (#1800)
|
2022-06-23 16:38:50 +00:00 |
|
kallisto/index
|
add stub for kallisto/index (#1944)
|
2022-08-09 09:23:55 +02:00 |
|
kallistobustools
|
Improved kbtools/count (#1884)
|
2022-07-14 14:27:56 +02:00 |
|
kat/hist
|
Update tests/modules/kat/hist/test.yml
|
2022-05-23 08:51:49 +02:00 |
|
khmer
|
Add khmer unique-kmers.py module (#1838)
|
2022-06-30 16:23:30 +01:00 |
|
kleborate
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
kraken2/kraken2
|
update to kraken2: breaking change - output channels renamed (#1525)
|
2022-04-21 14:33:59 +02:00 |
|
krakentools
|
Update KRAKENTOOLS/COMBINEKREPORTS (#2043)
|
2022-09-13 14:31:27 +02:00 |
|
krona
|
Fix Krona ktimporttaxonomy to allow multiple input files and simplifies database input (#1841)
|
2022-07-01 15:18:29 +02:00 |
|
last
|
Untar unzip meta (#1408)
|
2022-03-21 14:49:28 +01:00 |
|
leehom
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
legsta
|
add module for legsta (#1319)
|
2022-02-18 17:42:18 -07:00 |
|
lima
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
lissero
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
lofreq
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
macrel/contigs
|
Add new module macrel/contigs (#1109)
|
2021-12-09 13:17:50 +01:00 |
|
macs2/callpeak
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
mafft
|
Add MAFFT module (#1351)
|
2022-02-28 00:40:24 -07:00 |
|
malt
|
Update MALT to older version due to major bug in most recent version (#1796)
|
2022-06-20 08:20:22 +02:00 |
|
maltextract
|
Untar unzip meta (#1408)
|
2022-03-21 14:49:28 +01:00 |
|
manta
|
Update tests/modules/manta/convertinversion/main.nf
|
2022-06-13 09:26:35 +02:00 |
|
mapdamage2
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
mash
|
Patch mash screen
|
2022-05-25 12:29:14 +00:00 |
|
mashtree
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
maxbin2
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
maxquant/lfq
|
corrected typos
|
2022-02-07 13:07:16 +01:00 |
|
mcroni
|
add module for mcroni (#1750)
|
2022-06-13 15:04:01 +02:00 |
|
md5sum
|
new module: md5sum
|
2022-05-06 09:20:40 +02:00 |
|
medaka
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
megahit
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
megan
|
Add MEGAN/DAA2INFO (#1848)
|
2022-07-05 09:36:22 +02:00 |
|
meningotype
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
merqury
|
Add Merqury (#1647)
|
2022-07-14 10:38:50 +02:00 |
|
merquryfk
|
Add MerquryFK KatGC (#1798)
|
2022-06-23 20:57:15 +02:00 |
|
meryl
|
Merge branch 'master' into meryl_unionsum
|
2022-05-09 16:16:08 +02:00 |
|
metabat2
|
Update metabat2 output channels and compression (#1111)
|
2021-12-09 15:00:32 +01:00 |
|
metaphlan3
|
Update METAPHLAN3_METAPHLAN3 to correct module name (#2056)
|
2022-09-15 09:09:55 +02:00 |
|
methyldackel
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
minia
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
miniasm
|
Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
|
2021-12-02 12:39:55 +00:00 |
|
minimap2
|
Added the meta map to minimap2/index (#1934)
|
2022-09-08 09:27:14 +01:00 |
|
mlst
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
mobsuite/recon
|
add mobsuite_recon module (#1270)
|
2022-02-18 17:52:38 -07:00 |
|
mosdepth
|
Update main.nf
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2022-05-25 19:38:12 +01:00 |
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motus
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Update MOTUS/PROFILE module to output log file (#1871)
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2022-07-13 11:26:27 +02:00 |
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msisensor
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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msisensor2
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1976 msisensor2 (#1977)
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2022-09-05 13:00:18 +02:00 |
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msisensorpro
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Add msisensorpro (#1267)
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2022-02-09 21:05:49 +01:00 |
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mtnucratio
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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multiqc
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Update MULTIQC for an additional custom config (#2063)
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2022-09-15 13:53:15 +02:00 |
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multivcfanalyzer
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Add MultiVCFAnalyzer (#1845)
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2022-07-05 09:47:10 +02:00 |
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mummer
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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muscle
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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nanolyse
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Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
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2021-12-02 12:39:55 +00:00 |
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nanoplot
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Fix formatting in yaml files, add yamllint config (#1279)
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2022-02-15 11:15:27 +00:00 |
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ncbigenomedownload
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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nextclade
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Bump tool versions for modules required in viralrecon (#1859)
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2022-07-07 14:48:04 +01:00 |
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ngmaster
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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ngscheckmate/ncm
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New module: NGSCheckMate (#1290)
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2022-03-11 09:02:10 +00:00 |
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nucmer
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Fix formatting in yaml files, add yamllint config (#1279)
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2022-02-15 11:15:27 +00:00 |
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optitype
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Add BAM indexes as input for optitype module. (#1388)
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2022-03-15 17:02:40 +01:00 |
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pairix
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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pairtools
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Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
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2021-12-02 12:39:55 +00:00 |
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panaroo/run
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add module for panaroo, fix pirate tests (#1444)
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2022-03-24 20:11:04 -06:00 |
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pangolin
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Bump tool versions for modules required in viralrecon (#1859)
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2022-07-07 14:48:04 +01:00 |
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paraclu
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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pasty
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add module for pasty (#2003)
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2022-09-07 09:29:28 -06:00 |
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pbbam/pbmerge
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Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
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2021-12-02 12:39:55 +00:00 |
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pbccs
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Fix formatting in yaml files, add yamllint config (#1279)
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2022-02-15 11:15:27 +00:00 |
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pbptyper
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add module for pbptyper (#2005)
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2022-09-07 15:29:03 -06:00 |
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pear
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Add new module: Pear (#1779)
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2022-07-15 10:28:31 +02:00 |
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peddy
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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phantompeakqualtools
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Add task.ext.args to phantompeakqualtools and finish the module (#1474)
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2022-03-31 22:59:21 +01:00 |
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phyloflash
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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picard
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add stub to picard/addorreplacereadgroups (#2057)
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2022-09-14 15:44:47 +02:00 |
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pints/caller
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feat(pints): Add initial caller module (#1983)
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2022-08-31 14:04:48 +00:00 |
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pirate
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add module for panaroo, fix pirate tests (#1444)
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2022-03-24 20:11:04 -06:00 |
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plasmidfinder
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add module for plasmidfinder (#1773)
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2022-06-15 10:25:51 -06:00 |
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plasmidid
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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plink
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Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
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2021-12-02 12:39:55 +00:00 |
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plink2
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implement plink2/score module (#1259)
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2022-03-07 13:02:40 -05:00 |
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pmdtools/filter
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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porechop
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Update PORECHOP module to output log file (#1870)
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2022-07-12 16:07:31 +02:00 |
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preseq
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Split preseq lcextrap and ccurve (#1440)
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2022-03-25 17:11:40 +00:00 |
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prinseqplusplus
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Add PRINSEQPLUSPLUS (#1481)
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2022-04-03 16:06:22 +02:00 |
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prodigal
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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prokka
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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pycoqc
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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pydamage
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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qcat
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Fix formatting in yaml files, add yamllint config (#1279)
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2022-02-15 11:15:27 +00:00 |
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qualimap
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add qualimap with cram files + remove val from qualimap/bam, instead use empty list as everywhere else (#1320)
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2022-02-18 09:43:53 +01:00 |
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quast
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Bump tool versions for modules required in viralrecon (#1859)
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2022-07-07 14:48:04 +01:00 |
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racon
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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rapidnj
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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rasusa
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Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
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2021-12-02 12:39:55 +00:00 |
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raven
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Raven assembler (#1087)
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2022-02-01 11:47:01 +01:00 |
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raxmlng
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Fix formatting in yaml files, add yamllint config (#1279)
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2022-02-15 11:15:27 +00:00 |
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rgi/main
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Update RGI: add database version reporting to module (#1824)
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2022-06-29 16:30:51 -06:00 |
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rhocall/annotate
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update test
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2022-06-08 16:36:02 +02:00 |
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rmarkdownnotebook
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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roary
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Update test.yml (#1419)
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2022-03-19 15:06:21 +00:00 |
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rsem
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Bump STAR version to 2.7.10a for RSEM modules (#1573)
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2022-04-27 19:21:26 +01:00 |
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rseqc
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Provide BAI when running rseqc/tin (#1177)
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2021-12-17 10:00:09 +00:00 |
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rtgtools
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new module rtgtools/pedfilter (#1777)
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2022-06-14 16:02:18 +02:00 |
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salmon
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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samblaster
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Samtools version update (#1507)
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2022-04-11 14:26:28 +02:00 |
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samtools
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Added the optional .gzi output of "samtools faidx" (#1935)
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2022-09-08 13:35:23 +01:00 |
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scoary
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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scramble
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New module: scramble (#2015)
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2022-09-07 13:19:18 +02:00 |
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seacr/callpeak
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Fix formatting in yaml files, add yamllint config (#1279)
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2022-02-15 11:15:27 +00:00 |
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seqkit
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feat: add module for seqkit stats (#1466)
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2022-03-30 23:01:17 +02:00 |
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seqsero2
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Fix formatting in yaml files, add yamllint config (#1279)
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2022-02-15 11:15:27 +00:00 |
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seqtk
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Decrease indent in seqtk/seq versions.yml output (#1384)
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2022-03-09 11:56:35 -05:00 |
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sequenzautils
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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seqwish/induce
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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sexdeterrmine
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Corrected test-datasets input
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2022-05-23 17:08:40 +02:00 |
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shasum
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added sha256sum
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2022-05-06 10:28:14 +02:00 |
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shigatyper
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Merge remote-tracking branch 'origin' into motus_profile
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2022-05-05 09:41:13 -04:00 |
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shovill
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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sistr
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add module for sistr (#1323)
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2022-02-18 17:33:48 -07:00 |
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slimfastq
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feat: add module for slimfastq
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2022-05-02 23:16:59 +02:00 |
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snapaligner
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snapaligner: improve index detection (#1836)
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2022-06-30 12:19:46 +02:00 |
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snippy
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add snippy/core module (#1855)
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2022-09-08 06:58:10 +02:00 |
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snpdists
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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snpeff
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DRAFT: Extend output from snpeff (#1895)
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2022-07-16 20:08:52 +02:00 |
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snpsift/split
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Added new module snpsift/split (#1031)
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2021-12-17 09:08:14 +01:00 |
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snpsites
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Fix formatting in yaml files, add yamllint config (#1279)
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2022-02-15 11:15:27 +00:00 |
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sourmash/sketch
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feat: add sourmash sketch (#1287)
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2022-02-15 12:30:28 +01:00 |
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spades
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Bump tool versions for modules required in viralrecon (#1859)
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2022-07-07 14:48:04 +01:00 |
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spatyper
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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sratools
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refactor: move files to custom section
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2022-05-11 17:33:45 +02:00 |
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srst2/srst2
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Merge remote-tracking branch 'origin' into motus_profile
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2022-05-05 09:41:13 -04:00 |
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ssuissero
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add module for ssuisero (#1329)
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2022-02-27 20:04:03 -07:00 |
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stadeniolib/scramble
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new tool: staden_io_lib (#1499)
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2022-04-08 09:54:15 -04:00 |
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staphopiasccmec
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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star
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Add stub star align genomegenerate (#1948)
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2022-08-09 09:42:19 +02:00 |
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stranger
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add stubs for stranger (#1543)
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2022-04-22 10:10:43 +02:00 |
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strelka
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Update intervals (#1278)
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2022-02-10 10:34:22 +01:00 |
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stringtie
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add stub for stringtie (#1949)
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2022-08-09 10:11:37 +02:00 |
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subread/featurecounts
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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svdb
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SVDB_MERGE bgzip (#1910)
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2022-07-20 10:54:06 +02:00 |
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svtk/standardize
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new module: svtk/standardize (#2031)
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2022-09-08 15:03:08 +02:00 |
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tabix
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fix bgziptabix extension (#1784)
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2022-06-15 10:33:10 +02:00 |
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tailfindr
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Tailfindr (#1904)
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2022-07-22 16:20:53 +02:00 |
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tbprofiler/profile
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Fix formatting in yaml files, add yamllint config (#1279)
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2022-02-15 11:15:27 +00:00 |
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tiddit
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TIDDIT - add --skip_assembly when no bwa specified (#1769)
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2022-06-13 17:02:59 +02:00 |
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transdecoder
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Transdecoder predict (#1251)
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2022-02-02 09:46:07 +01:00 |
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trimgalore
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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trimmomatic
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Trimmomatic (#1757)
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2022-06-17 13:18:15 +00:00 |
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ucsc
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Update stub for ucsc/wigtobigwig (#2065)
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2022-09-15 13:12:05 +02:00 |
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ultra
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New modules: ultra/index and ultra/align (#1830)
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2022-07-04 07:46:49 +01:00 |
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umitools
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Fix Conda tests
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2022-05-23 22:39:12 +01:00 |
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unicycler
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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untar
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Fix for nested directories in tar archive (#2062)
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2022-09-15 11:32:36 +02:00 |
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unzip
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Untar unzip meta (#1408)
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2022-03-21 14:49:28 +01:00 |
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vardictjava
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Added java options to vardict java (#1695)
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2022-08-10 14:13:03 +02:00 |
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variantbam
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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vcf2db
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new module vcf2db (#1795)
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2022-06-17 15:54:02 +02:00 |
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vcf2maf
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vcf2maf module with built in VEP (#1768)
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2022-06-20 18:27:12 +02:00 |
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vcfanno
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small changes to vcfanno (#1804)
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2022-06-24 08:58:26 +02:00 |
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vcflib/vcfuniq
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Bump tool versions for modules required in viralrecon (#1859)
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2022-07-07 14:48:04 +01:00 |
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vcftools
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Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
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vsearch/usearchglobal
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prettier
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2022-05-30 13:35:12 +02:00 |
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whamg
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New module: Whamg (#1994)
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2022-09-02 13:33:48 +02:00 |
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yara
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Add samtools index to yara_mapper module (#1353)
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2022-03-04 10:08:02 -05:00 |
