Description

Generate a samplesheet csv for sanger-tol/blobtoolkit

Input

Name
Description
Pattern

meta (map)

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

pacbio_files (file)

Collection of *.fasta.gz formatted longread data

[*.{fasta.gz,fa.gz}]

meta2 (map)

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

ont_files (file)

Collection of *.fasta.gz formatted longread data

[*.{fasta.gz,fa.gz}]

meta3 (map)

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

illumina_files (file)

Collection of *.fasta.gz formatted longread data

[*.{fasta.gz,fa.gz}]

illumina_layout (string)

Layout of input data "SINGLE" or "PAIRED"

Output

Name
Description
Pattern

csv

new_meta (map)

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

${prefix}.samplesheet.csv (file)

CSV samplesheet required for Blobtoolkit

versions_blobtoolkitgeneratecsv

${task.process} (string)

The name of the process

blobtoolkit_generatecsv (string)

The name of the tool

1.0.0 (string)

The expression to obtain the version of the tool

Topics

Name
Description
Pattern

versions

${task.process} (string)

The name of the process

blobtoolkit_generatecsv (string)

The name of the tool

1.0.0 (string)

The expression to obtain the version of the tool

Tools

blobtoolkit_generatecsv Documentation

A samplesheet generator for the BlobToolKit pipeline

https://pipelines.tol.sanger.ac.uk/blobtoolkit/usage#samplesheet-inputdoi: 10.5281/zenodo.7949058
Pipelines with this module
ascc
Authors