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{:bash}

:map

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

fastqs{:bash}

:file

Input FASTQ files

*.{fastq.gz,fq.gz}

index{:bash}

:directory

Index/database directory from malt-build

*/

Output

name:type
description
pattern

rma6{:bash}

meta{:bash}

:file

MEGAN6 RMA6 file

*.rma6

*.rma6{:bash}

:file

MEGAN6 RMA6 file

*.rma6

alignments{:bash}

meta{:bash}

:file

MEGAN6 RMA6 file

*.rma6

*.{tab,text,sam,tab.gz,text.gz,sam.gz}{:bash}

:file

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

*.{tab,txt,sam}

log{:bash}

meta{:bash}

:file

MEGAN6 RMA6 file

*.rma6

*.log{:bash}

:file

Log of verbose MALT stdout

*-malt-run.log

versions{:bash}

versions.yml{:bash}

:file

File containing software versions

versions.yml

Tools

included in
taxprofiler
maintainer
Github user jfy133
get in touch
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