mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-23 19:48:16 +00:00
ae92159762
* Initial structure * Working with local singularity image * Working generateMap.pl script * Remote not working bioconda * Working generateMap with biocontainer * Lint changes * Updated hmmcopy container version to be consistent * Fix failing test * Remove path to perl * No hardpath to script * Update main.nf Moved version outside of process, add support for zipped fasta file * Revert to not allowing gzip via pipe, as perl script can't cope Co-authored-by: Simon Pearce <simon.pearce@cruk.manchester.ac.uk>
32 lines
1,023 B
YAML
32 lines
1,023 B
YAML
name: hmmcopy_generatemap
|
|
description: Perl script (generateMap.pl) generates the mappability of a genome given a certain size of reads, for input to hmmcopy mapcounter. Takes a very long time on large genomes, is not parallelised at all.
|
|
keywords:
|
|
- hmmcopy
|
|
- mapcounter
|
|
- mappability
|
|
tools:
|
|
- hmmcopy:
|
|
description: C++ based programs for analyzing BAM files and preparing read counts -- used with bioconductor-hmmcopy
|
|
homepage: https://github.com/shahcompbio/hmmcopy_utils
|
|
documentation: https://github.com/shahcompbio/hmmcopy_utils
|
|
tool_dev_url: https://github.com/shahcompbio/hmmcopy_utils
|
|
doi: ""
|
|
licence: ['GPL v3']
|
|
|
|
input:
|
|
- fasta:
|
|
type: file
|
|
description: Input genome fasta file
|
|
|
|
output:
|
|
- versions:
|
|
type: file
|
|
description: File containing software versions
|
|
pattern: "versions.yml"
|
|
- bigwig:
|
|
type: file
|
|
description: bigwig file containing the mappability of the genome
|
|
pattern: "*.{map.bw}"
|
|
|
|
authors:
|
|
- "@sppearce"
|