modules/geofetch

geofetch is a command-line tool that downloads and organizes data and metadata from GEO and SRA

GEOexpressionmicroarraysequencing

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

Description

geofetch is a command-line tool that downloads and organizes data and metadata from GEO and SRA

Input

name:type

description

pattern

`geo_accession{:bash}`
`:string`

GEO accession ID

Output

name:type

description

pattern

`samples{:bash}`

`${geo_accession}{:bash}`
`:file`

List of sample files fetched

${geo_accession}/*.CEL.gz

`${geo_accession}/*.CEL.gz{:bash}`
`:file`

List of sample files fetched

${geo_accession}/*.CEL.gz

`versions{:bash}`

`versions.yml{:bash}`
`:file`

File containing software versions

versions.yml

Tools

geofetch
BSD-2-clause

Downloads data and metadata from GEO and SRA and creates standard PEPs.

args_id: $args

http://geofetch.databio.org https://github.com/pepkit/geofetch

modules/geofetch

Description

Input

`geo_accession{:bash}`
`:string`

Output

`samples{:bash}`

`${geo_accession}{:bash}`
`:file`

`${geo_accession}/*.CEL.gz{:bash}`
`:file`

`versions{:bash}`

`versions.yml{:bash}`
`:file`

Tools

geofetch
BSD-2-clause

maintainer

get in touch

modules/geofetch

Description

Input

geo_accession{:bash}:string

Output

samples{:bash}

${geo_accession}{:bash}:file

${geo_accession}/*.CEL.gz{:bash}:file

versions{:bash}

versions.yml{:bash}:file

Tools

geofetch BSD-2-clause

maintainer

get in touch

`geo_accession{:bash}`
`:string`

`samples{:bash}`

`${geo_accession}{:bash}`
`:file`

`${geo_accession}/*.CEL.gz{:bash}`
`:file`

`versions{:bash}`

`versions.yml{:bash}`
`:file`

geofetch
BSD-2-clause