Description

uLTRA aligner - A wrapper around minimap2 to improve small exon detection - Map reads on genome

Input

name:type
description
pattern

meta{:bash}

:map

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

reads{:bash}

:file

A fasta or fastq file of reads to align

*.{fa,fasta,fastq}

meta2{:bash}

:map

Groovy Map containing genome information e.g. [ id:‘test’ ]

genome{:bash}

:file

A fasta file of reference genome

*.{fa,fasta}

meta3{:bash}

:map

Groovy Map containing genome information e.g. [ id:‘test’ ]

pickle{:bash}

:file

Pickle files generated by uLTRA index

*.pickle

db{:bash}

:file

Database generated by uLTRA index

*.db

Output

name:type
description
pattern

bam{:bash}

meta{:bash}

:map

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

*.bam{:bash}

:file

The aligned reads in bam format

*.bam

versions{:bash}

versions.yml{:bash}

:file

File containing software versions

versions.yml

Tools

ultra
GNU GPLV3

Splice aligner of long transcriptomic reads to genome.

github.com/ksahlin/uLTRA 10.1093/bioinformatics/btab540
included in
isoseq
maintainer
Github user sguizard
get in touch
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