PRINSEQ

Application data
Created by	Robert Schmieder
Biological application domain(s)	Transcriptomics, Metagenomics, Genomics
Principal bioinformatics method(s)	Read pre-processing, Sequence contamination filtering, Sequence trimming
Technology	Sanger, Illumina, 454, Ion Torrent, PacBio
Created at	San Diego State University, Sourceforge
Maintained?	Yes
Input format(s)	FASTA, FASTQ, QUAL, (Compressed) FASTA, (Compressed) FASTQ
Output format(s)	FASTA, FASTQ, QUAL
Programming language(s)	Perl
Licence	GPLv3
Operating system(s)	UNIX, Mac OS X, Windows

Summary: PRINSEQ is a sequence processing tool that can be used to filter, reformat and trim genomic and metagenomic sequence data. It generates summary statistics of the input in graphical and tabular formats that can be used for quality control steps. PRINSEQ is available as both standalone and web-based versions.

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Description

Not only sequencing, but also data analysis costs money. Analyzing poor data wastes CPU time and interpreting the results from poor data wastes people time. The quality control step can be easily performed using the summary statistics generated by PRINSEQ and can help to choose parameters for data preprocessing. The filter, trim and reformat options provided by PRINSEQ can ensure that the data used for downstream analysis is not compromised of low-quality sequences or sequence artifacts that might lead to erroneous conclusions. PRINSEQ is free, fast, and does not require you to install any software.