modules
modules copied to clipboard
nf-core
Repository to host tool-specific module files for the Nextflow DSL2 community!
### Is there an existing module for this? - [X] I have searched for the existing module ### Is there an open PR for this? - [X] I have searched...
This PR adds splice junction files as an input for STAR align. This is necessary to perform 2 pass mapping (See STAR manual section 8.1), and useful for RNAseq variant...
### Is there an existing module for this? - [X] I have searched for the existing module ### Is there an open PR for this? - [X] I have searched...
Picard/ADDORREPLACEREADGROUPS: making args conform to other packages; adding optional index output
- modified picard_addorreplacedreadgroups to parse the `ext.args` parameter similarly to how other modules parse it - added an optional emit channel for the index, in the event the flag `CREATE_INDEX`...
[YAHA](https://pubmed.ncbi.nlm.nih.gov/22829624/) is an open-source,flexible, sensitive andaccurate hash-based DNA aligner designed for relatively long queries(approximately 100bp to 32Kbp). [Github repo here](https://github.com/GregoryFaust/yaha). - [ x] This comment contains a description of changes...
### Is there an existing module for this? - [X] I have searched for the existing module ### Is there an open PR for this? - [X] I have searched...
Update of the COOLER modules - New `balance` tool - New `makebins` tool - I just realized that my PR also includes an old one that I did a few...
Hi A small changes to allow to run the `cload` and `dump` cooler functions across multiple resolutions Thanks Nicolas
The container referenced in the current module has a broken `/etc/resolv.conf` that prevents the software from downloading anything. ``` Command executed: ncbi-genome-download \ -A GCF_000013425.1 --formats genbank,fasta,assembly-stats bacteria \ \...
Follow-up of #1921 and #1917; this time for `minimap2/index` This PR brings support for the meta map into `minimap2/index` ## PR checklist - [x] This comment contains a description of...