Description

Identify insertion sites positions in bacterial genomes

Input

Name (Type)
Description
Pattern

meta (map)

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

]

reads (file)

A set of paired-end FASTQ files

*.{fastq.gz,fq.gz}

reference (file)

Reference genome in GenBank format

*.{gbk}

query (file)

Insertion sequences to query in FASTA format

*.{fasta,fa}

Output

Name (Type)
Description
Pattern

meta (map)

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

]

versions (file)

File containing software versions

versions.yml

results (directory)

Directory containing ISMapper result files

*/*

Tools

ismapper
BSD-3-Clause

A mapping-based tool for identification of the site and orientation of IS insertions in bacterial genomes.