mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-09-21 07:42:05 +00:00
6243c3792c
* Add stubs for deepvariant [ci skip] * Update the stubs for deepvariant [ci skip] * functional with google docker image * cleanup * consume docker container within singularity executor * update the meta.yml file and ask for review * tweak the input channel shape and test data * tweak input data [ci skip] * update for the new syntax * remove the functions and rename meta vars * Update the arguments mechanism * update chr, region and checksum Co-authored-by: Gregor Sturm <mail@gregor-sturm.de> Co-authored-by: Maxime U. Garcia <max.u.garcia@gmail.com> Co-authored-by: FriederikeHanssen <Friederike.hanssen@qbic.uni-tuebingen.de>
58 lines
1.6 KiB
YAML
58 lines
1.6 KiB
YAML
name: deepvariant
|
|
description: DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data
|
|
keywords:
|
|
- variant calling
|
|
- machine learning
|
|
tools:
|
|
- deepvariant:
|
|
description: DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data
|
|
homepage: https://github.com/google/deepvariant
|
|
documentation: https://github.com/google/deepvariant
|
|
tool_dev_url: https://github.com/google/deepvariant
|
|
doi: "https://doi.org/10.1038/nbt.4235"
|
|
licence: ['BSD-3-clause']
|
|
|
|
input:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- bam:
|
|
type: file
|
|
description: BAM file
|
|
pattern: "*.bam"
|
|
- bai:
|
|
type: file
|
|
description: Index of BAM file
|
|
pattern: "*.bai"
|
|
- fasta:
|
|
type: file
|
|
description: The reference fasta file
|
|
pattern: "*.fasta"
|
|
- fai:
|
|
type: file
|
|
description: Index of reference fasta file
|
|
pattern: "*.fai"
|
|
|
|
output:
|
|
- meta:
|
|
type: map
|
|
description: |
|
|
Groovy Map containing sample information
|
|
e.g. [ id:'test', single_end:false ]
|
|
- vcf:
|
|
type: file
|
|
description: Compressed VCF file
|
|
pattern: "*.vcf.gz"
|
|
- gvcf:
|
|
type: file
|
|
description: Compressed GVCF file
|
|
pattern: "*.g.vcf.gz"
|
|
- version:
|
|
type: file
|
|
description: File containing software version
|
|
pattern: "*.{version.txt}"
|
|
|
|
authors:
|
|
- "@abhi18av"
|