Description

A versatile pairwise aligner for genomic and spliced nucleotide sequences

Input

Name (Type)
Description
Pattern

meta (map)

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

]

pep (file)

a fasta file contains one or multiple protein sequences

meta2 (map)

Groovy Map containing reference information

ref (file)

Reference database in FASTA format or miniprot index format.

Output

Name (Type)
Description
Pattern

meta (map)

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

]

paf (file)

Alignment in PAF format

*.paf

gff (file)

Alignment in gff format

*.gff

versions (file)

File containing software versions

versions.yml

Tools

miniprot
MIT

A versatile pairwise aligner for genomic and protein sequences.