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Pull requests: snakemake/snakemake-wrappers

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26 Open 4,835 Closed
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Pull requests list

perf: autobump bio/reference/ensembl-mysql-table/environment.yaml bio/reference/ensembl-mysql-table
#4979 opened Feb 20, 2026 by snakedeploy-bot bot Loading…
perf: autobump bio/gatk/applybqsrspark/environment.yaml bio/gatk/applybqsrspark
#4977 opened Feb 20, 2026 by snakedeploy-bot bot Loading…
perf: autobump bio/toulligqc/environment.yaml bio/toulligqc
#4935 opened Feb 6, 2026 by snakedeploy-bot bot Loading…
2
feat: Add wrappers in bio/reference for Ensembl Genomes
#4882 opened Dec 23, 2025 by kbseah Loading…
7 tasks done
30
feat: add pytrf sub-commands as individual Snakemake-Wrappers
#4745 opened Nov 27, 2025 by rohan-ibn-tariq Loading…
7 tasks done
@fgvieira
73
feat: announcement robot message and image
#4712 opened Nov 7, 2025 by cmeesters Loading…
3
perf: autobump bio/pyfastaq/replace_bases/environment.yaml bio/pyfastaq/replace_bases
#4707 opened Nov 7, 2025 by snakedeploy-bot bot Loading…
2
perf: autobump bio/ngscheckmate/ncm/environment.yaml bio/ngscheckmate/ncm
#4705 opened Nov 7, 2025 by snakedeploy-bot bot Loading…
1
feat: Salmon-tximport meta-wrapper pathvars update
#4665 opened Oct 20, 2025 by tdayris Loading…
6 of 7 tasks
7
feat: allow setting launchDir in params
#4638 opened Oct 9, 2025 by tedil Loading…
14
fix: Support both reference.dict and reference.fasta.dict in GRIDSS wrappers
#4426 opened Aug 19, 2025 by RitzelC Loading…
15
perf: autobump bio/ngscheckmate/ncm bio/ngscheckmate/ncm
#3542 opened Dec 13, 2024 by snakedeploy-bot bot Loading…
2
feat: bowtie2 can now sort with samtools and picard Stale
#3518 opened Dec 3, 2024 by jlanga Loading…
7 tasks done
43
feat: added wrapper for Paraphase Stale
#3071 opened Jul 15, 2024 by MagdalenaZZ Loading…
1 task done
@fgvieira
75
feat: Add a wrapper for quarto markdown rendering Stale
#3003 opened Jun 20, 2024 by votti Loading…
1 task done
33
feat: ensembl reference collections Stale
#2977 opened Jun 3, 2024 by mauripops Loading…
1 task done
15
feat: Add configurable protocol support to ensembl reference download Stale
#2649 opened Feb 15, 2024 by pettyalex Loading…
1 task done
13
feat: add wrapper for metaDMG Stale
#1809 opened Sep 19, 2023 by fgvieira • Draft
1 task done
1
feat: add ngsngs wrapper Stale
#1808 opened Sep 19, 2023 by fgvieira • Draft
1 task done
1
feat: new inphared-db wrapper Stale
#1550 opened Jul 20, 2023 by nacnoriko Loading…
1 task
19
feat: add wrapper for rbt vcf_fix_iupac_alleles
#1209 opened Apr 5, 2023 by fgvieira Loading…
1 task done
11
fix: Allow concurrent and large refgenie downloads Stale
#1172 opened Mar 28, 2023 by Austin-s-h Loading…
1 task done
14
Update wrapper documentation Stale
#392 opened Jul 22, 2021 by tdayris Loading…
10 of 12 tasks
6
Add GATK ValidateVariants stale: contribution welcome Please feel free to finalize this work. Stale
#390 opened Jul 19, 2021 by G-kodes Loading…
12 tasks done
7
Add cosmic database download wrapper stale: contribution welcome Please feel free to finalize this work. Stale
#345 opened Apr 22, 2021 by tedil Loading…
17
ProTip! What’s not been updated in a month: updated:<2026-02-04.