| .. |
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abacas
|
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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abricate
|
Prettier (#1405)
|
2022-03-18 14:27:50 +01:00 |
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adapterremoval
|
Refactor adapterremoval (#1491)
|
2022-04-04 21:40:35 +02:00 |
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adapterremovalfixprefix
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
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agrvate
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
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allelecounter
|
fix incorrect yaml formatting. (#1264)
|
2022-04-14 13:35:01 +02:00 |
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ampir
|
Apply suggestions from code review
|
2022-06-10 14:46:58 +02:00 |
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amplify/predict
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Update manual versioning (#1813)
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2022-06-27 10:35:41 +02:00 |
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amps
|
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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amrfinderplus
|
Amrfinderplus add tool and db version as output (#1912)
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2022-07-20 11:55:44 +02:00 |
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antismash
|
antismashlite: Support GBK input (#1840)
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2022-07-01 09:29:53 +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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Add manual version definition for artic modules (#1867)
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2022-07-12 11:33:51 +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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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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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] bump Bakta to 1.5.0 (#2000)
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2022-09-02 15:15:12 -06:00 |
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bamaligncleaner
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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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bamcmp
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Update manual versioning (#1813)
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2022-06-27 10:35:41 +02:00 |
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bamtools
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Remove a blank line (#1793)
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2022-06-17 10:58:24 +01:00 |
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bamutil/trimbam
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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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bandage/image
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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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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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Reduce resource requests (#2021)
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2022-09-07 10:33:05 +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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bclconvert: Update Dockerfile (#1819)
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2022-06-28 11:11:16 +01:00 |
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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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Prettier (#1405)
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2022-03-18 14:27:50 +01:00 |
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bismark
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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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blast
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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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bowtie
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Improve descriptions for modules with missing
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2022-07-06 12:03:08 +02:00 |
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bowtie2
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Improve descriptions for modules with missing
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2022-07-06 12:03:08 +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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feat: remove read_group which should be set up with task.ext.args (#1521)
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2022-04-13 14:30:34 +02:00 |
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bwamem2
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typo in bwamem2 index meta.yml (#1963)
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2022-08-24 10:31:05 +02:00 |
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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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Bugfix for CellRanger Dockerfile (#1812)
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2022-06-27 11:07:33 +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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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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cmseq/polymut
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Update manual versioning (#1813)
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2022-06-27 10:35:41 +02:00 |
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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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removed extra ) in the version strings (#1850)
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2022-07-05 15:24:08 +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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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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csvtk
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Prettier (#1405)
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2022-03-18 14:27:50 +01:00 |
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custom
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Reduce resource requests (#2021)
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2022-09-07 10:33:05 +02:00 |
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cutadapt
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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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damageprofiler
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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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dastool
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DASTool output channels update (#1489)
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2022-04-04 13:31:36 +02:00 |
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dedup
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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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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
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2022-06-02 10:38:05 +02:00 |
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deepvariant
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Revert recent changes made to some of the modules (#1463)
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2022-03-30 20:21:06 +02:00 |
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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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feat: remove read_group which should be set up with task.ext.args (#1521)
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2022-04-13 14:30:34 +02:00 |
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dragonflye
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Update dragonflye to latest version (#1442)
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2022-03-24 14:56:32 -04:00 |
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dshbio
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Update dsh-bio to version 2.0.8. (#1483)
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2022-04-09 11:13:47 -05:00 |
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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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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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ensemblvep
|
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
|
Improve descriptions for modules with missing
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2022-07-06 12:03:08 +02:00 |
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faqcs
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Prettier (#1405)
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2022-03-18 14:27:50 +01:00 |
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fargene
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Update manual versioning (#1813)
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2022-06-27 10:35:41 +02:00 |
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fastani
|
Improve descriptions for modules with missing
|
2022-07-06 12:03:08 +02:00 |
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fastawindows
|
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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module FASTP: Support for interleaved FASTQ (#1891)
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2022-07-19 16:27:15 +01:00 |
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fastqc
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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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fastqscan
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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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fasttree
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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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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)
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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
|
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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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
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
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gamma/gamma
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Update manual versioning (#1813)
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2022-06-27 10:35:41 +02:00 |
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gappa/examinegraft
|
Add gappa/examinegraft (#2035)
|
2022-09-09 09:26:41 +02:00 |
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gatk
|
Apply suggestions from code review
|
2022-06-09 08:33:37 +02:00 |
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gatk4
|
new module gatk4/collectsvevidence (#2039)
|
2022-09-09 10:58:47 +02:00 |
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gecco/run
|
Update module: Gecco fix to no file generated if no hits found (#1930)
|
2022-07-27 15:19:43 +02:00 |
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genescopefk
|
Update manual versioning (#1813)
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2022-06-27 10:35:41 +02:00 |
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genmap
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
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genmod
|
update options (#1959)
|
2022-08-22 16:26:05 +02:00 |
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genomescope2
|
Update outputs and test data set
|
2022-05-11 10:42:17 +00:00 |
|
genrich
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
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gffread
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
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glimpse/chunk
|
Creation of Glimpse Chunk (#1985)
|
2022-09-01 10:01:49 +02:00 |
|
glnexus
|
add stub to modules used in raredisease pipeline (#1206)
|
2022-03-28 17:48:39 +02:00 |
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goat/taxonsearch
|
Add module: goat/taxonsearch (#1866)
|
2022-08-18 08:34:58 -06:00 |
|
graphmap2
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
gstama
|
Adjust requested ressources for gstama/merge, isoseq3/refine, lima, ultra/align (#1858)
|
2022-07-07 11:10:18 +01:00 |
|
gtdbtk/classifywf
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
gubbins
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
gunc
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
gunzip
|
Add stub run to gunzip module (#1849)
|
2022-07-04 17:33:55 +02:00 |
|
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: stub output name
|
2022-06-08 10:10:24 -03:00 |
|
happy
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
hicap
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
hifiasm
|
Add when: block (#1261)
|
2022-02-04 09:53:32 +01:00 |
|
hisat2
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
hmmcopy
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
hmmer
|
Add hmmer/eslreformat (#2009)
|
2022-09-05 15:21:09 +02:00 |
|
hmtnote
|
Update main.nf
|
2022-05-16 15:20:15 +00:00 |
|
homer
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
hpsuissero
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
ichorcna
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
idr
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
imputeme/vcftoprs
|
Add when: block (#1261)
|
2022-02-04 09:53:32 +01:00 |
|
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
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
isoseq3
|
Adjust requested ressources for gstama/merge, isoseq3/refine, lima, ultra/align (#1858)
|
2022-07-07 11:10:18 +01:00 |
|
ivar
|
Patch fix artic/minion and ivar/variants modules (#1326)
|
2022-02-18 17:36:09 +00:00 |
|
jupyternotebook
|
Add when: block (#1261)
|
2022-02-04 09:53:32 +01:00 |
|
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
|
Add module kat hist
|
2022-05-06 07:54:10 +00:00 |
|
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
|
Improves kraken2 output glob (#1987)
|
2022-08-31 15:42:44 +02:00 |
|
krakentools
|
Add krakentools/combinekreports (#2018)
|
2022-09-06 11:32:30 -06:00 |
|
krona
|
Fix Krona ktimporttaxonomy to allow multiple input files and simplifies database input (#1841)
|
2022-07-01 15:18:29 +02:00 |
|
last
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
leehom
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
legsta
|
Prettier (#1405)
|
2022-03-18 14:27:50 +01:00 |
|
lima
|
Adjust requested ressources for gstama/merge, isoseq3/refine, lima, ultra/align (#1858)
|
2022-07-07 11:10:18 +01:00 |
|
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
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
macs2/callpeak
|
Prettier (#1405)
|
2022-03-18 14:27:50 +01:00 |
|
mafft
|
Prettier (#1405)
|
2022-03-18 14:27:50 +01:00 |
|
malt
|
Update MALT to older version due to major bug in most recent version (#1796)
|
2022-06-20 08:20:22 +02:00 |
|
maltextract
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
manta
|
Reduce resource requests (#2021)
|
2022-09-07 10:33:05 +02:00 |
|
mapdamage2
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
mash
|
Patch mash screen
|
2022-05-25 12:29:14 +00:00 |
|
mashtree
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
maxbin2
|
Fix for Maxbin2 emitting input files (#1376)
|
2022-03-08 15:56:23 +01:00 |
|
maxquant/lfq
|
ran prettier
|
2022-05-16 14:30:40 +02:00 |
|
mcroni
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
md5sum
|
fix software definitions
|
2022-05-06 11:07:05 +02:00 |
|
medaka
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
megahit
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
megan
|
Add MEGAN/DAA2INFO (#1848)
|
2022-07-05 09:36:22 +02:00 |
|
meningotype
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
merqury
|
Add Merqury (#1647)
|
2022-07-14 10:38:50 +02:00 |
|
merquryfk
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
meryl
|
Merge branch 'master' into meryl_unionsum
|
2022-05-09 16:16:08 +02:00 |
|
metabat2
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
metaphlan3
|
Move MetaPhlAn3 to a subcommand and add mergemetaphlantables (#2026)
|
2022-09-07 21:58:03 +02:00 |
|
methyldackel
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
minia
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
miniasm
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
minimap2
|
Added the meta map to minimap2/index (#1934)
|
2022-09-08 09:27:14 +01:00 |
|
mlst
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
mobsuite/recon
|
Prettier (#1405)
|
2022-03-18 14:27:50 +01:00 |
|
mosdepth
|
Update main.nf
|
2022-05-25 19:42:15 +01:00 |
|
motus
|
Update MOTUS/PROFILE module to output log file (#1871)
|
2022-07-13 11:26:27 +02:00 |
|
msisensor
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
msisensor2
|
1976 msisensor2 (#1977)
|
2022-09-05 13:00:18 +02:00 |
|
msisensorpro
|
Prettier (#1405)
|
2022-03-18 14:27:50 +01:00 |
|
mtnucratio
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
multiqc
|
Update MultiQC to re-add staging logos as a separate input channel (#2032)
|
2022-09-08 12:36:15 +02:00 |
|
multivcfanalyzer
|
Add MultiVCFAnalyzer (#1845)
|
2022-07-05 09:47:10 +02:00 |
|
mummer
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
muscle
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
nanolyse
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
nanoplot
|
Bump tool versions for modules required in viralrecon (#1859)
|
2022-07-07 14:48:04 +01:00 |
|
ncbigenomedownload
|
Use a newer container version because the previous one is broken (#1933)
|
2022-08-22 11:18:09 +01:00 |
|
nextclade
|
Bump tool versions for modules required in viralrecon (#1859)
|
2022-07-07 14:48:04 +01:00 |
|
ngmaster
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
ngscheckmate/ncm
|
NGSCheckMate doesn't generate a pdf for only one sample, made optional output (#1839)
|
2022-06-30 17:43:34 +01:00 |
|
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
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
pairtools
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +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 manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
pasty
|
add module for pasty (#2003)
|
2022-09-07 09:29:28 -06:00 |
|
pbbam/pbmerge
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
pbccs
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
pbptyper
|
add module for pbptyper (#2005)
|
2022-09-07 15:29:03 -06:00 |
|
pear
|
Add new module: Pear (#1779)
|
2022-07-15 10:28:31 +02:00 |
|
peddy
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
phantompeakqualtools
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
phyloflash
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
picard
|
new module: Picard/fastqtosam (#1911)
|
2022-08-30 14:27:00 +02:00 |
|
pints/caller
|
fix(pints): Remove update check (#1989)
|
2022-09-08 05:03:48 +02:00 |
|
pirate
|
add module for panaroo, fix pirate tests (#1444)
|
2022-03-24 20:11:04 -06:00 |
|
plasmidfinder
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
plasmidid
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
plink
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
plink2
|
Prettier (#1405)
|
2022-03-18 14:27:50 +01:00 |
|
pmdtools/filter
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +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
|
fix yml formatting (#1263)
|
2022-02-07 18:16:43 +01:00 |
|
prokka
|
Prokka: Fix typo in variable name (#1846)
|
2022-07-04 15:04:59 +02:00 |
|
pycoqc
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
pydamage
|
Update PyDamage module (#1467)
|
2022-03-31 09:18:18 -04:00 |
|
qcat
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
qualimap
|
add stub for qualimap/rnaseq (#1946)
|
2022-08-09 15:24:35 +02:00 |
|
quast
|
Bump tool versions for modules required in viralrecon (#1859)
|
2022-07-07 14:48:04 +01:00 |
|
racon
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
rapidnj
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
rasusa
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
raven
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
raxmlng
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
rgi/main
|
RGI/main export versions as explicit emission strings (#1909)
|
2022-07-20 10:33:53 +02:00 |
|
rhocall/annotate
|
fix versions.yaml
|
2022-06-07 14:43:35 +02:00 |
|
rmarkdownnotebook
|
Add when: block (#1261)
|
2022-02-04 09:53:32 +01:00 |
|
roary
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
rsem
|
Bump STAR version to 2.7.10a for RSEM modules (#1573)
|
2022-04-27 19:21:26 +01:00 |
|
rseqc
|
Change label for rseqc/tin to process_high (#1327)
|
2022-02-21 13:26:51 +00:00 |
|
rtgtools
|
new module rtgtools/pedfilter (#1777)
|
2022-06-14 16:02:18 +02:00 |
|
salmon
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
samblaster
|
Samtools version update (#1507)
|
2022-04-11 14:26:28 +02:00 |
|
samtools
|
Added the optional .gzi output of "samtools faidx" (#1935)
|
2022-09-08 13:35:23 +01:00 |
|
scoary
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
scramble
|
New module: scramble (#2015)
|
2022-09-07 13:19:18 +02:00 |
|
seacr/callpeak
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
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
|
Prettier (#1405)
|
2022-03-18 14:27:50 +01:00 |
|
sequenzautils
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
seqwish/induce
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
sexdeterrmine
|
Apply suggestions from code review
|
2022-06-10 11:03:01 +02:00 |
|
shasum
|
fix software definitions
|
2022-05-06 11:07:05 +02:00 |
|
shigatyper
|
Merge remote-tracking branch 'origin' into motus_profile
|
2022-05-05 09:41:13 -04:00 |
|
shovill
|
Add when: block (#1261)
|
2022-02-04 09:53:32 +01:00 |
|
sistr
|
Prettier (#1405)
|
2022-03-18 14:27:50 +01:00 |
|
slimfastq
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
snapaligner
|
snapaligner: improve index detection (#1836)
|
2022-06-30 12:19:46 +02:00 |
|
snippy
|
add snippy/core module (#1855)
|
2022-09-08 06:58:10 +02:00 |
|
snpdists
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
snpeff
|
DRAFT: Extend output from snpeff (#1895)
|
2022-07-16 20:08:52 +02:00 |
|
snpsift/split
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
snpsites
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
sortmerna
|
Add when: block (#1261)
|
2022-02-04 09:53:32 +01:00 |
|
sourmash/sketch
|
Prettier (#1405)
|
2022-03-18 14:27:50 +01:00 |
|
spades
|
Bump tool versions for modules required in viralrecon (#1859)
|
2022-07-07 14:48:04 +01:00 |
|
spatyper
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +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
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
stadeniolib/scramble
|
new tool: staden_io_lib (#1499)
|
2022-04-08 09:54:15 -04:00 |
|
staphopiasccmec
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
star
|
Add stub star align genomegenerate (#1948)
|
2022-08-09 09:42:19 +02:00 |
|
stranger
|
add stubs for stranger (#1543)
|
2022-04-22 10:10:43 +02:00 |
|
strelka
|
Reduce resource requests (#2021)
|
2022-09-07 10:33:05 +02:00 |
|
stringtie
|
add stub for stringtie (#1949)
|
2022-08-09 10:11:37 +02:00 |
|
subread/featurecounts
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
svdb
|
SVDB MERGE samtools version (#1913)
|
2022-07-20 12:42:40 +02:00 |
|
svtk/standardize
|
new module: svtk/standardize (#2031)
|
2022-09-08 15:03:08 +02:00 |
|
tabix
|
Reduce resource requests (#2021)
|
2022-09-07 10:33:05 +02:00 |
|
tailfindr
|
Tailfindr (#1904)
|
2022-07-22 16:20:53 +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
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
trimgalore
|
Add Trimgalore output for unpaired reads (#1568)
|
2022-04-26 19:15:24 +01:00 |
|
trimmomatic
|
Trimmomatic (#1757)
|
2022-06-17 13:18:15 +00:00 |
|
ucsc
|
bedToBigBed AutoSql option (#1981)
|
2022-09-09 09:27:47 +01:00 |
|
ultra
|
Adjust requested ressources for gstama/merge, isoseq3/refine, lima, ultra/align (#1858)
|
2022-07-07 11:10:18 +01:00 |
|
umitools
|
Set PYTHONHASHSEED for umitools dedup (#1932)
|
2022-08-31 14:05:12 +01:00 |
|
unicycler
|
Fix formatting in yaml files, add yamllint config (#1279)
|
2022-02-15 11:15:27 +00:00 |
|
untar
|
Reduce resource requests (#2021)
|
2022-09-07 10:33:05 +02:00 |
|
unzip
|
Reduce resource requests (#2021)
|
2022-09-07 10:33:05 +02:00 |
|
vardictjava
|
Added java options to vardict java (#1695)
|
2022-08-10 14:13:03 +02:00 |
|
variantbam
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
vcf2db
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +02:00 |
|
vcf2maf
|
Update manual versioning (#1813)
|
2022-06-27 10:35:41 +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
|
Reduce resource requests (#2021)
|
2022-09-07 10:33:05 +02:00 |
|
vsearch/usearchglobal
|
Merge branch 'vsearch_usearch_global' of https://github.com/jtangrot/nf-core_modules into vsearch_usearch_global
|
2022-05-30 13:05:00 +02:00 |
|
whamg
|
New module: Whamg (#1994)
|
2022-09-02 13:33:48 +02:00 |
|
yara
|
Samtools version update (#1507)
|
2022-04-11 14:26:28 +02:00 |
