modules/sourmash_sketch

Create a signature (a group of FracMinHash sketches) of a sequence using sourmash

hash sketchsourmashgenomicsmetagenomicstaxonomic classificationtaxonomic profilingkmer

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

Description

Create a signature (a group of FracMinHash sketches) of a sequence using sourmash

Input

name:type

description

pattern

`meta{:bash}`
`:map`

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

`sequence{:bash}`
`:file`

FASTA or FASTQ file containing (genomic, transcriptomic, or proteomic) sequence data

*.{fna,fa,fasta,fastq,fq,faa}.gz

Output

name:type

description

pattern

`signatures{:bash}`

`meta{:bash}`
`:map`

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

`*.sig{:bash}`
`:file`

FracMinHash signature of the given sequence

*.{sig}

`versions{:bash}`

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

File containing software versions

versions.yml

Tools

sourmash
BSD-3-clause

Compute and compare FracMinHash signatures for DNA and protein data sets.

sourmash.readthedocs.io https://github.com/sourmash-bio/sourmash 10.21105/joss.00027

modules/sourmash_sketch

Description

Input

`meta{:bash}`
`:map`

`sequence{:bash}`
`:file`

Output

`signatures{:bash}`

`meta{:bash}`
`:map`

`*.sig{:bash}`
`:file`

`versions{:bash}`

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

Tools

sourmash
BSD-3-clause

included in

maintainer

get in touch

modules/sourmash_sketch

Description

Input

meta{:bash}:map

sequence{:bash}:file

Output

signatures{:bash}

meta{:bash}:map

*.sig{:bash}:file

versions{:bash}

versions.yml{:bash}:file

Tools

sourmash BSD-3-clause

included in

maintainer

get in touch

`meta{:bash}`
`:map`

`sequence{:bash}`
`:file`

`signatures{:bash}`

`meta{:bash}`
`:map`

`*.sig{:bash}`
`:file`

`versions{:bash}`

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

sourmash
BSD-3-clause