modules/gzrt

gzrecover is a program that will attempt to extract any readable data out of a gzip file that has been corrupted

corruptedfastqrecovery

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

Description

gzrecover is a program that will attempt to extract any readable data out of a gzip file that has been corrupted

Input

name:type

description

pattern

`meta{:bash}`
`:map`

Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]

`fastqgz{:bash}`
`:file`

FASTQ.gz files

*.{gz}

Output

name:type

description

pattern

`recovered{:bash}`

`meta{:bash}`
`:map`

Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ]

`${prefix}*.fastq.gz{:bash}`
`:file`

Recovered FASTQ.gz files

*.{gz}

`versions{:bash}`

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

File containing software versions

versions.yml

Tools

gzrt
GPL v2

Unofficial build of the gzip Recovery Toolkit aka gzrecover

urbanophile.com/arenn/hacking/gzrt/gzrt https://github.com/arenn/gzrt no DOI available

modules/gzrt

Description

Input

`meta{:bash}`
`:map`

`fastqgz{:bash}`
`:file`

Output

`recovered{:bash}`

`meta{:bash}`
`:map`

`${prefix}*.fastq.gz{:bash}`
`:file`

`versions{:bash}`

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

Tools

gzrt
GPL v2

included in

maintainers

get in touch

modules/gzrt

Description

Input

meta{:bash}:map

fastqgz{:bash}:file

Output

recovered{:bash}

meta{:bash}:map

${prefix}*.fastq.gz{:bash}:file

versions{:bash}

versions.yml{:bash}:file

Tools

gzrt GPL v2

included in

maintainers

get in touch

`meta{:bash}`
`:map`

`fastqgz{:bash}`
`:file`

`recovered{:bash}`

`meta{:bash}`
`:map`

`${prefix}*.fastq.gz{:bash}`
`:file`

`versions{:bash}`

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

gzrt
GPL v2