modules/maltextract

Tool for evaluation of MALT results for true positives of ancient metagenomic taxonomic screening

maltMaltExtractHOPSalignmentmetagenomicsancient DNAaDNApalaeogenomicsarchaeogenomicsmicrobiomeauthenticationdamageedit distance

https://github.com/nf-core/modules/[...]/modules/nf-core/maltextract

Description

Tool for evaluation of MALT results for true positives of ancient metagenomic taxonomic screening

Input

name:type

description

pattern

`meta:map`

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

`rma6:file`

RMA6 files from MALT

*.rma6

`taxon_list:file`

List of target taxa to evaluate

*.txt

`ncbi_dir:directory`

Directory containing NCBI taxonomy map and tre files

${ncbi_dir}/

Output

name:type

description

pattern

`results`

`meta:directory`

Directory containing MaltExtract text results files

results/

`results:directory`

Directory containing MaltExtract text results files

results/

`versions`

`versions.yml:file`

File containing software versions

versions.yml

Tools

maltextract
GPL 3

Java tool to work with ancient metagenomics

github.com/rhuebler/hops 10.1186/s13059-019-1903-0

modules/maltextract

Description

Input

meta:map

rma6:file

taxon_list:file

ncbi_dir:directory

Output

results

meta:directory

results:directory

versions

versions.yml:file