| .. |
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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
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add module for abricate (#1280)
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2022-02-18 18:00:21 -07:00 |
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adapterremoval
|
Refactor adapterremoval (#1491)
|
2022-04-04 21:40:35 +02:00 |
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adapterremovalfixprefix
|
Add AdapterRemovalFixPrefix (#1424)
|
2022-03-21 11:26:12 +01:00 |
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agrvate
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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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allelecounter
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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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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
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Untar unzip meta (#1408)
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2022-03-21 14:49:28 +01:00 |
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amrfinderplus
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add amrfinderplus module (#1284)
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2022-02-19 23:02:23 +00:00 |
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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)
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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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Add atlas/call (#1809)
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2022-07-01 15:06:07 +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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Samtools version update (#1507)
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2022-04-11 14:26:28 +02:00 |
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bcftools
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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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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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fix config
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2022-05-17 09:09:19 +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/bracken
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Add bracken (#1423)
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2022-03-22 16:40:21 +01:00 |
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busco
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Change busco multi-fasta test md5sum to contains
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2022-06-13 08:51:41 +00:00 |
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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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Add new boolean sort_bam as input to be able to chose between sort and view in bwamem and bwamem2mem (#1125)
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2021-12-08 14:31:27 +00:00 |
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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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Update cat module (#1469)
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2022-03-31 13:42:44 +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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Add centrifuge_kreport module (#1514)
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2022-04-13 15:33:51 +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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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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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
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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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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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deeptools
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changed container + add cram2bam conversion
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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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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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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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elprep
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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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emmtyper
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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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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/esummary
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Add ENTREZDIRECT/ESUMMARY (#1833)
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2022-07-13 11:26:58 -06:00 |
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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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fastk
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Add FastK/Merge (#1828)
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2022-06-29 18:04:36 +02:00 |
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fastp
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Proposal: Rename output from fastp module (#1802)
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2022-06-24 10:01:14 +02:00 |
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fastqc
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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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fastqscan
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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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fasttree
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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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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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Updated container versions for fgbio (#1878)
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2022-07-14 13:51:34 +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
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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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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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freebayes
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Update intervals (#1278)
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2022-02-10 10:34:22 +01:00 |
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gamma/gamma
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fixed test.yml
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2022-05-24 19:27:09 -04:00 |
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gatk
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Add GATK indelrealigner tests
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2022-06-08 21:14:08 +02:00 |
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gatk4
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Add module: gatk4/leftalignandtrimvariants (#1808)
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2022-06-28 10:44:08 +02:00 |
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gecco/run
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Add gecco/run module (#1790)
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2022-06-22 13:43:45 +02:00 |
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genescopefk
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Add GeneScopeFK (#1781)
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2022-06-14 20:49:06 +02:00 |
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genmap
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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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genomescope2
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Update tests/modules/genomescope2/test.yml
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2022-05-13 11:27:42 +02:00 |
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genrich
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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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gffread
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Replace remaining task.ext.suffix with task.ext.prefix (#1117)
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2021-12-07 15:00:43 +01:00 |
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glnexus
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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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graphmap2
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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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gstama
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New Module: gstama/polyacleanup (#1468)
|
2022-03-31 09:11:51 -04:00 |
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gtdbtk/classifywf
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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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gubbins
|
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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gunc
|
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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gunzip
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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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hamronization
|
new module hamronization/rgi (#1844)
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2022-07-01 12:03:08 +02:00 |
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haplocheck
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fix: string interpolation and test input access
|
2022-06-08 09:08:59 -03:00 |
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happy
|
Merge remote-tracking branch 'origin' into motus_profile
|
2022-05-05 09:41:13 -04:00 |
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hicap
|
Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
|
hifiasm
|
Update all modules to new NF DSL2 syntax (#1099)
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2021-11-26 07:58:40 +00:00 |
|
hisat2
|
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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hmmcopy
|
hmmcopy/mapCounter (#1175)
|
2021-12-17 15:39:50 +00:00 |
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hmmer
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Prettier (#1405)
|
2022-03-18 14:27:50 +01:00 |
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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 |
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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 |
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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 |
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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)
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2021-11-26 07:58:40 +00:00 |
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isoseq3
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
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ivar
|
Patch fix artic/minion and ivar/variants modules (#1326)
|
2022-02-18 17:36:09 +00:00 |
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jupyternotebook
|
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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kaiju
|
Add KAIJU2KRONA module (#1800)
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2022-06-23 16:38:50 +00:00 |
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kallisto/index
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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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kallistobustools
|
Improved kbtools/count (#1884)
|
2022-07-14 14:27:56 +02:00 |
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kat/hist
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Update tests/modules/kat/hist/test.yml
|
2022-05-23 08:51:49 +02:00 |
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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/kreport2krona
|
New module: krakentools/kreport2krona (#1746)
|
2022-06-13 20:14:44 +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 |
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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
|
Untar unzip meta (#1408)
|
2022-03-21 14:49:28 +01:00 |
|
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
|
Update minimap2/align module (#1537)
|
2022-04-26 16:32:20 +02:00 |
|
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
|
2022-05-25 19:38:12 +01:00 |
|
motus
|
Update MOTUS/PROFILE module to output log file (#1871)
|
2022-07-13 11:26:27 +02:00 |
|
msisensor
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
msisensorpro
|
Add msisensorpro (#1267)
|
2022-02-09 21:05:49 +01:00 |
|
mtnucratio
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
multiqc
|
formatting
|
2022-06-08 14:42:58 +02:00 |
|
multivcfanalyzer
|
Add MultiVCFAnalyzer (#1845)
|
2022-07-05 09:47:10 +02:00 |
|
mummer
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
muscle
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
nanolyse
|
Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
|
2021-12-02 12:39:55 +00:00 |
|
nanoplot
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
ncbigenomedownload
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
nextclade
|
Bump tool versions for modules required in viralrecon (#1859)
|
2022-07-07 14:48:04 +01:00 |
|
ngmaster
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
ngscheckmate/ncm
|
New module: NGSCheckMate (#1290)
|
2022-03-11 09:02:10 +00:00 |
|
nucmer
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
optitype
|
Add BAM indexes as input for optitype module. (#1388)
|
2022-03-15 17:02:40 +01:00 |
|
pairix
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
pairtools
|
Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
|
2021-12-02 12:39:55 +00:00 |
|
panaroo/run
|
add module for panaroo, fix pirate tests (#1444)
|
2022-03-24 20:11:04 -06:00 |
|
pangolin
|
Bump tool versions for modules required in viralrecon (#1859)
|
2022-07-07 14:48:04 +01:00 |
|
paraclu
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
pbbam/pbmerge
|
Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
|
2021-12-02 12:39:55 +00:00 |
|
pbccs
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
peddy
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
phantompeakqualtools
|
Add task.ext.args to phantompeakqualtools and finish the module (#1474)
|
2022-03-31 22:59:21 +01:00 |
|
phyloflash
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
picard
|
Bump tool versions for modules required in viralrecon (#1859)
|
2022-07-07 14:48:04 +01:00 |
|
pirate
|
add module for panaroo, fix pirate tests (#1444)
|
2022-03-24 20:11:04 -06:00 |
|
plasmidfinder
|
add module for plasmidfinder (#1773)
|
2022-06-15 10:25:51 -06:00 |
|
plasmidid
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
plink
|
Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
|
2021-12-02 12:39:55 +00:00 |
|
plink2
|
implement plink2/score module (#1259)
|
2022-03-07 13:02:40 -05:00 |
|
pmdtools/filter
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
porechop
|
Update PORECHOP module to output log file (#1870)
|
2022-07-12 16:07:31 +02:00 |
|
preseq
|
Split preseq lcextrap and ccurve (#1440)
|
2022-03-25 17:11:40 +00:00 |
|
prinseqplusplus
|
Add PRINSEQPLUSPLUS (#1481)
|
2022-04-03 16:06:22 +02:00 |
|
prodigal
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
prokka
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
pycoqc
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
pydamage
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
qcat
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
qualimap
|
add qualimap with cram files + remove val from qualimap/bam, instead use empty list as everywhere else (#1320)
|
2022-02-18 09:43:53 +01:00 |
|
quast
|
Bump tool versions for modules required in viralrecon (#1859)
|
2022-07-07 14:48:04 +01:00 |
|
racon
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
rapidnj
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
rasusa
|
Change syntax from task.ext.suffix to tast.ext.prefix in all modules (#1110)
|
2021-12-02 12:39:55 +00:00 |
|
raven
|
Raven assembler (#1087)
|
2022-02-01 11:47:01 +01:00 |
|
raxmlng
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
rgi/main
|
Update RGI: add database version reporting to module (#1824)
|
2022-06-29 16:30:51 -06:00 |
|
rhocall/annotate
|
update test
|
2022-06-08 16:36:02 +02:00 |
|
rmarkdownnotebook
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
roary
|
Update test.yml (#1419)
|
2022-03-19 15:06:21 +00:00 |
|
rsem
|
Bump STAR version to 2.7.10a for RSEM modules (#1573)
|
2022-04-27 19:21:26 +01:00 |
|
rseqc
|
Provide BAI when running rseqc/tin (#1177)
|
2021-12-17 10:00:09 +00:00 |
|
rtgtools
|
new module rtgtools/pedfilter (#1777)
|
2022-06-14 16:02:18 +02:00 |
|
salmon
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
samblaster
|
Samtools version update (#1507)
|
2022-04-11 14:26:28 +02:00 |
|
samtools
|
samtools/*stats*: use prefix for outputs (#1788)
|
2022-06-16 13:42:01 +02:00 |
|
scoary
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
seacr/callpeak
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
seqkit
|
feat: add module for seqkit stats (#1466)
|
2022-03-30 23:01:17 +02:00 |
|
seqsero2
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
seqtk
|
Decrease indent in seqtk/seq versions.yml output (#1384)
|
2022-03-09 11:56:35 -05:00 |
|
sequenzautils
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
seqwish/induce
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
sexdeterrmine
|
Corrected test-datasets input
|
2022-05-23 17:08:40 +02:00 |
|
shasum
|
added sha256sum
|
2022-05-06 10:28:14 +02:00 |
|
shigatyper
|
make prettier
|
2022-04-21 12:55:56 -06:00 |
|
shovill
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
sistr
|
add module for sistr (#1323)
|
2022-02-18 17:33:48 -07:00 |
|
slimfastq
|
Merge remote-tracking branch 'origin' into motus_profile
|
2022-05-05 09:41:13 -04:00 |
|
snapaligner
|
snapaligner: improve index detection (#1836)
|
2022-06-30 12:19:46 +02:00 |
|
snippy/run
|
make prettier
|
2022-05-11 18:00:36 +00:00 |
|
snpdists
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
snpeff
|
update snpeff to 5.1 and cache up to 105 (#1877)
|
2022-07-13 15:16:21 +02:00 |
|
snpsift/split
|
Added new module snpsift/split (#1031)
|
2021-12-17 09:08:14 +01:00 |
|
snpsites
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
sourmash/sketch
|
feat: add sourmash sketch (#1287)
|
2022-02-15 12:30:28 +01:00 |
|
spades
|
Bump tool versions for modules required in viralrecon (#1859)
|
2022-07-07 14:48:04 +01:00 |
|
spatyper
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
sratools
|
refactor: move files to custom section
|
2022-05-11 17:33:45 +02:00 |
|
srst2/srst2
|
Merge remote-tracking branch 'origin' into motus_profile
|
2022-05-05 09:41:13 -04:00 |
|
ssuissero
|
add module for ssuisero (#1329)
|
2022-02-27 20:04:03 -07:00 |
|
stadeniolib/scramble
|
new tool: staden_io_lib (#1499)
|
2022-04-08 09:54:15 -04:00 |
|
staphopiasccmec
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
star
|
Fix tests
|
2022-05-27 12:14:10 +01:00 |
|
stranger
|
add stubs for stranger (#1543)
|
2022-04-22 10:10:43 +02:00 |
|
strelka
|
Update intervals (#1278)
|
2022-02-10 10:34:22 +01:00 |
|
stringtie
|
Rename process from STRINGTIE to STRINGTIE_STRINGTIE (#1546)
|
2022-04-22 15:13:06 +01:00 |
|
subread/featurecounts
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
svdb
|
update svdb to version 2.5.2 (#1390)
|
2022-03-21 10:39:34 +01:00 |
|
tabix
|
fix bgziptabix extension (#1784)
|
2022-06-15 10:33:10 +02:00 |
|
tbprofiler/profile
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
tiddit
|
TIDDIT - add --skip_assembly when no bwa specified (#1769)
|
2022-06-13 17:02:59 +02:00 |
|
transdecoder
|
Transdecoder predict (#1251)
|
2022-02-02 09:46:07 +01:00 |
|
trimgalore
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
trimmomatic
|
Trimmomatic (#1757)
|
2022-06-17 13:18:15 +00:00 |
|
ucsc
|
ucsc/wigtobigwig: add meta map (#1199)
|
2022-01-11 21:31:37 +00:00 |
|
ultra
|
New modules: ultra/index and ultra/align (#1830)
|
2022-07-04 07:46:49 +01:00 |
|
umitools
|
Fix Conda tests
|
2022-05-23 22:39:12 +01:00 |
|
unicycler
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
untar
|
fix untar output dir
|
2022-06-02 11:09:55 +02:00 |
|
unzip
|
Untar unzip meta (#1408)
|
2022-03-21 14:49:28 +01:00 |
|
vardictjava
|
Merge remote-tracking branch 'origin' into motus_profile
|
2022-05-05 09:41:13 -04:00 |
|
variantbam
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
vcf2db
|
new module vcf2db (#1795)
|
2022-06-17 15:54:02 +02:00 |
|
vcf2maf
|
vcf2maf module with built in VEP (#1768)
|
2022-06-20 18:27:12 +02:00 |
|
vcfanno
|
small changes to vcfanno (#1804)
|
2022-06-24 08:58:26 +02:00 |
|
vcflib/vcfuniq
|
Bump tool versions for modules required in viralrecon (#1859)
|
2022-07-07 14:48:04 +01:00 |
|
vcftools
|
Update all modules to new NF DSL2 syntax (#1099)
|
2021-11-26 07:58:40 +00:00 |
|
vsearch/usearchglobal
|
prettier
|
2022-05-30 13:35:12 +02:00 |
|
yara
|
Add samtools index to yara_mapper module (#1353)
|
2022-03-04 10:08:02 -05:00 |
3531824af8