modules/snpsift_dbnsfp

The dbNSFP is an integrated database of functional predictions from multiple algorithms

variant callingdbnsfpsnpsiftcancer genomicspredictions

https://github.com/nf-core/modules/[...]/modules/nf-core/snpsift/dbnsfp

Description

The dbNSFP is an integrated database of functional predictions from multiple algorithms

Input

name:type

description

pattern

`meta`
`:map`

Groovy Map containing sample information regarding vcf file provided e.g. [ id:‘test’, single_end:false ]

`vcf`
`:file`

VCF file

*.{vcf, vcf.gz}

`vcf_tbi`
`:file`

Tabix file for compressed vcf provided

*.{tbi}

`meta2`
`:map`

Groovy map containing sample information regarding database provided

`database`
`:file`

Database for use to annotate

*.{vcf/vcf.gz}

`dbs_tbi`
`:file`

Tabix file for compressed database provided

*.{tbi}

Output

name:type

description

pattern

`vcf`

`meta`
`:map`

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

`*.vcf`
`:file`

Variant Calling File annotated

*.{vcf}

`versions`

`versions.yml`
`:file`

File containing software versions

versions.yml

Tools

snpsift
MIT

SnpSift is a toolbox that allows you to filter and manipulate annotated files

pcingola.github.io/SnpEff/ss_introduction pcingola.github.io/SnpEff/ss_dbnsfp https://github.com/pcingola/SnpEff 10.3389/fgene.2012.00035

modules/snpsift_dbnsfp

Description

Input

`meta`
`:map`

`vcf`
`:file`

`vcf_tbi`
`:file`

`meta2`
`:map`

`database`
`:file`

`dbs_tbi`
`:file`

Output

`vcf`

`meta`
`:map`

`*.vcf`
`:file`

`versions`

`versions.yml`
`:file`

Tools

snpsift
MIT

maintainer

get in touch

modules/snpsift_dbnsfp

Description

Input

meta:map

vcf:file

vcf_tbi:file

meta2:map

database:file

dbs_tbi:file

Output

vcf

meta:map

*.vcf:file

versions

versions.yml:file

Tools

snpsift MIT

maintainer

get in touch

`meta`
`:map`

`vcf`
`:file`

`vcf_tbi`
`:file`

`meta2`
`:map`

`database`
`:file`

`dbs_tbi`
`:file`

`vcf`

`meta`
`:map`

`*.vcf`
`:file`

`versions`

`versions.yml`
`:file`

snpsift
MIT