modules/ucsc_bedtobigbed

Convert file from bed to bigBed format

bedbigbeducscbedtobigbedconverter

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

Description

Convert file from bed to bigBed format

Input

name:type

description

pattern

`meta:map`

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

]

`bed:file`

bed file

*.{bed}

`sizes:file`

chromosome sizes file

*.{sizes}

`autosql:file`

autoSql file to describe the columns of the BED file

*.{as}

Output

name:type

description

pattern

`bigbed`

`meta:map`

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

]

`*.bigBed:file`

bigBed file

*.{bigBed}

`versions`

`versions.yml:file`

File containing software versions

versions.yml

Tools

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

Convert file from bed to bigBed format

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

modules/ucsc_bedtobigbed

Description

Input

`meta:map`

`bed:file`

`sizes:file`

`autosql:file`

Output

`bigbed`

`meta:map`

`*.bigBed:file`

`versions`

`versions.yml:file`

Tools

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

maintainer

get in touch

modules/ucsc_bedtobigbed

Description

Input

meta:map

bed:file

sizes:file

autosql:file

Output

bigbed

meta:map

*.bigBed:file

versions

versions.yml:file

Tools

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

maintainer

get in touch

`meta:map`

`bed:file`

`sizes:file`

`autosql:file`

`bigbed`

`meta:map`

`*.bigBed:file`

`versions`

`versions.yml:file`

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