Description

MALT, an acronym for MEGAN alignment tool, is a sequence alignment and analysis tool designed for processing high-throughput sequencing data, especially in the context of metagenomics.

Input

Name (Type)
Description
Pattern

meta (map)

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

]

fastqs (file)

Input FASTQ files

*.{fastq.gz,fq.gz}

index (directory)

Index/database directory from malt-build

*/

Output

Name (Type)
Description
Pattern

versions (file)

File containing software versions

versions.yml

rma6 (file)

MEGAN6 RMA6 file

*.rma6

sam (file)

Alignment files in Tab, Text or MEGAN-compatible SAM format

*.{tab,txt,sam}

log (file)

Log of verbose MALT stdout

*-malt-run.log
included in
taxprofiler
author
Github user jfy133
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Tools

malt
GPL v3

A tool for mapping metagenomic data

wsi.uni-tuebingen.de/lehrstuehle/algorithms-in-bioinformatics/software/malt software-ab.cs.uni-tuebingen.de/download/malt/manual.pdf 10.1038/s41559-017-0446-6