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

alignments (file)

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

*.{tab,txt,sam}

log (file)

Log of verbose MALT stdout

*-malt-run.log