Description

PRINSEQ++ is a C++ implementation of the prinseq-lite.pl program. It can be used to filter, reformat or trim genomic and metagenomic sequence data

Input

Name (Type)
Description
Pattern

meta (map)

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

]

reads (file)

List of input FastQ files of size 1 and 2 for single-end and paired-end
data, respectively.

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

good_reads (file)

Reads passing filter(s) in gzipped FASTQ format

*_good_out_{R1,R2}.fastq.gz

single_reads (file)

Single reads without the pair passing filter(s) in gzipped FASTQ format

*_single_out_{R1,R2}.fastq.gz

bad_reads (file)

Reads without not passing filter(s) in gzipped FASTQ format

*_bad_out_{R1,R2}.fastq.gz

log (file)

Verbose level 2 STDOUT information in a log file

*.log
included in
taxprofiler
maintainer
Github user jfy133
get in touch
Ask a question on Slack Open an issue on GitHub

Tools

prinseqplusplus
GPL v2

PRINSEQ++ - Multi-threaded C++ sequence cleaning

github.com/Adrian-Cantu/PRINSEQ-plus-plus 10.7287/peerj.preprints.27553v1