Calculate metagenome redundancy curve from FASTQ files
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
[ id:'test', single_end:false ]
reads{:bash}
:file
FASTQ or FASTA file (ideally uncompressed, but not required)
*.{fasta,fna,fas,fa,fastq,fq,fasta.gz,fna.gz,fas.gz,fa.gz,fastq.gz,fq.gz}
format{:bash}
:string
File format of input file
fasta|fastq
mode{:bash}
Mode of redundancy estimation
kmer|alignment
npa{:bash}
*.npa{:bash}
Raw redundancy values
*.npa
npc{:bash}
*.npc{:bash}
Mates distribution file
*.npc
npl{:bash}
*.npl{:bash}
Log file
*.npl
npo{:bash}
*.npo{:bash}
Redundancy summary file
*.npo
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
Estimate average coverage and create curves for metagenomic datasets
