tdayris
### Description This PR handles bed intervals, germline vcf, panel of normals input files and f1r2 output file. I also introduced how to enable multi threading in some special cases,...
### Description General `meta.yaml` updates: * no information lost : it has been moved to correct section * no wrapper update: Only `meta.yaml` were updated * key-word arguments provided in...
THis PR add [goleft indexcov](https://github.com/brentp/goleft/tree/master/indexcov) to the list of available wrappers. ### QC * [X] I confirm that: For all wrappers added by this PR, * there is a test...
This PR adds all [ngsderive](https://github.com/stjudecloud/ngsderive) subcommands in a single wrapper, just like XSV and SeqKit. ### QC * [X] I confirm that: For all wrappers added by this PR, *...
This PR adds [`pyTMB`](https://github.com/bioinfo-pf-curie/TMB) to the list of available wrappers. ### QC * [X] I confirm that: For all wrappers added by this PR, * there is a test case...
### Description This PR adds a wrapper for [pcaExplorer](https://www.bioconductor.org/packages/release/bioc/vignettes/pcaExplorer/inst/doc/pcaExplorer.html#pcaExplorer_User_Guide)'s `pcaplot` function. ### QC * [X] I confirm that: For all wrappers added by this PR, * there is a test...
**Is your feature request related to a problem? Please describe.** Knowing the open issue on GATK github: [Mutect2: drop in SNV specificity/precision between v.4.1.8.1 and 4.1.9.0)](https://github.com/broadinstitute/gatk/issues/7921) Knowing the final answer...
This PR adds [agat](https://nbisweden.github.io/AGAT/) to the list of wrapper tools. Hi, I need advice on this PR: 1. I am wondering if it would be better to split this into...
This PR tries to make salmon-tximport meta-wrapper accessible through `pathvars`. Yet, I'd like to get some advice on how to proceed smoothly with the `expand` keyword and the `pathvars`. But...
This PR lets GATK meta-wrapper use `pathvars` syntax. ### QC * [x] I confirm that I have followed the [documentation for contributing to `snakemake-wrappers`](https://snakemake-wrappers.readthedocs.io/en/stable/contributing.html). While the contributions guidelines are more...