Description

Taxonomic meta-omics profiling using universal marker genes

Input

Name (Type)
Description
Pattern

meta (map)

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

]

reads (file)

List of input fastq/fasta files of size 1 and 2 for single-end and paired-end data,
respectively.
Or the intermediate bam file mapped by bwa to the mOTUs database or
the output bam file from motus profile.
Or the intermediate mgc read counts table.

*.{fastq,fq,fasta,fa,fastq.gz,fq.gz,fasta.gz,fa.gz,.bam,.mgc}

db (directory)

mOTUs database downloaded by motus downloadDB

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

out (file)

Results with taxonomic classification of each read

*.out

bam (file)

Optional intermediate sorted BAM file from BWA

*.{bam}

mgc (file)

Optional intermediate mgc read count table file saved with -M.

*.{mgc}

log (file)

Standard error logging file containing summary statistics

*.log