modules/ucsc_bedgraphtobigwig

Convert a bedGraph file to bigWig format.

bedgraphbigwigucscbedgraphtobigwigconverter

https://github.com/nf-core/modules/[...]/modules/nf-core/ucsc/bedgraphtobigwig

Description

Convert a bedGraph file to bigWig format.

Input

name:type

description

pattern

`meta`
`:map`

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

`bedgraph`
`:file`

bedGraph file

*.{bedGraph}

`sizes`
`:file`

chromosome sizes file

*.{sizes}

Output

name:type

description

pattern

`bigwig`

`meta`
`:map`

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

`*.bigWig`
`:file`

bigWig file

*.{bigWig}

`versions_ucsc`

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

The process the versions were collected from

`ucsc`
`:string`

The tool name

`482`
`:eval`

The expression to obtain the version of the tool

Topics

name:type

description

pattern

`versions`

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

The process the versions were collected from

`ucsc`
`:string`

The tool name

`482`
`:eval`

The expression to obtain the version of the tool

Tools

ucsc
varies; see http://genome.ucsc.edu/license

Convert a bedGraph file to bigWig format.

http://hgdownload.cse.ucsc.edu/admin/exe genome.ucsc.edu/goldenPath/help/bigWig

modules/ucsc_bedgraphtobigwig

Description

Input

`meta`
`:map`

`bedgraph`
`:file`

`sizes`
`:file`

Output

`bigwig`

`meta`
`:map`

`*.bigWig`
`:file`

`versions_ucsc`

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

`ucsc`
`:string`

`482`
`:eval`

Topics

`versions`

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

`ucsc`
`:string`

`482`
`:eval`

Tools

ucsc
varies; see http://genome.ucsc.edu/license

included in

maintainer

get in touch

modules/ucsc_bedgraphtobigwig

Description

Input

meta:map

bedgraph:file

sizes:file

Output

bigwig

meta:map

*.bigWig:file

versions_ucsc

${task.process}:string

ucsc:string

482:eval

Topics

versions

${task.process}:string

ucsc:string

482:eval

Tools

ucsc varies; see http://genome.ucsc.edu/license

included in

maintainer

get in touch

`meta`
`:map`

`bedgraph`
`:file`

`sizes`
`:file`

`bigwig`

`meta`
`:map`

`*.bigWig`
`:file`

`versions_ucsc`

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

`ucsc`
`:string`

`482`
`:eval`

`versions`

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

`ucsc`
`:string`

`482`
`:eval`

ucsc
varies; see http://genome.ucsc.edu/license