modules/hmtnote_annotate

Human mitochondrial variants annotation using HmtVar. Contains .plk file with annotation, so can be run offline

hmtnotemitochondriaannotation

https://github.com/nf-core/modules/[...]/modules/nf-core/hmtnote/annotate

This module is deprecated.

Description

Human mitochondrial variants annotation using HmtVar. Contains .plk file with annotation, so can be run offline

Input

name:type

description

pattern

`meta`
`:map`

Groovy Map containing sample information

`vcf`
`:file`

vcf file

*.vcf

Output

name:type

description

pattern

`vcf`

`meta`
`:map`

Groovy Map containing sample information

`*_annotated.vcf`
`:file`

annotated vcf

*_annotated.vcf

`versions_hmtnote`

`${task.process}`
`:string`

The name of the process

`hmtnote`
`:string`

The name of the tool

`hmtnote --version 2>&1 | sed 's/.*version //'`
`:eval`

The expression to obtain the version of the tool

Topics

name:type

description

pattern

`versions`

`${task.process}`
`:string`

The name of the process

`hmtnote`
`:string`

The name of the tool

`hmtnote --version 2>&1 | sed 's/.*version //'`
`:eval`

The expression to obtain the version of the tool

Tools

hmtnote
MIT

Human mitochondrial variants annotation using HmtVar.

github.com/robertopreste/HmtNote hmtnote.readthedocs.io/en/latest/usage 10.1101/600619

modules/hmtnote_annotate

Description

Input

`meta`
`:map`

`vcf`
`:file`

Output

`vcf`

`meta`
`:map`

`*_annotated.vcf`
`:file`

`versions_hmtnote`

`${task.process}`
`:string`

`hmtnote`
`:string`

`hmtnote --version 2>&1 | sed 's/.*version //'`
`:eval`

Topics

`versions`

`${task.process}`
`:string`

`hmtnote`
`:string`

`hmtnote --version 2>&1 | sed 's/.*version //'`
`:eval`

Tools

hmtnote
MIT

maintainer

get in touch

modules/hmtnote_annotate

Description

Input

meta :map

vcf :file

Output

vcf

meta :map

*_annotated.vcf :file

versions_hmtnote

${task.process} :string

hmtnote :string

hmtnote --version 2>&1 | sed 's/.*version //' :eval

Topics

versions

${task.process} :string

hmtnote :string

hmtnote --version 2>&1 | sed 's/.*version //' :eval

Tools

hmtnoteMIT

maintainer

get in touch

`meta`
`:map`

`vcf`
`:file`

`vcf`

`meta`
`:map`

`*_annotated.vcf`
`:file`

`versions_hmtnote`

`${task.process}`
`:string`

`hmtnote`
`:string`

`hmtnote --version 2>&1 | sed 's/.*version //'`
`:eval`

`versions`

`${task.process}`
`:string`

`hmtnote`
`:string`

`hmtnote --version 2>&1 | sed 's/.*version //'`
`:eval`

hmtnote
MIT