Description

A tool to create consensus sequences and variant calls from nanopore sequencing data

Input

name:type
description
pattern

meta:map

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

reads:file

List of input nanopore fasta/FastQ files

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

assembly:file

Genome assembly

*.{fasta,fa}

Output

name:type
description
pattern

assembly

meta:map

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

*.fa.gz:file

Polished genome assembly

*.fa.gz

versions

versions.yml:file

File containing software versions

versions.yml

Tools

medaka
Mozilla Public License 2.0

Neural network sequence error correction.