pqsfinder specifications


Unique identifier OMICS_20573
Name pqsfinder
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Nucleotide sequence
Input format FASTA, XString
Output data Annotation table
Output format GFF3, GRanges, XViews
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License BSD 2-clause “Simplified” License
Computer skills Advanced
Version 1.4.9
First release date 2016
Stability Stable
Maintained Yes



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  • person_outline Matej Lexa <>
  • person_outline Jiri Hon <>

Publication for pqsfinder

pqsfinder in publication

PMCID: 5838962
PMID: 29510672
DOI: 10.1186/s12864-018-4563-7

[…] forming sites in genomes. while most look for clusters of g runs in dna sequences with constrained spacing and use regular expressions or recursive searches (e.g. quadparser [], qgrs mapper [], pqsfinder []) other evaluate g-richness and g-skewness in a sliding window (g4hunter []) or use machine learning based on broadly defined sequence composition [, ]. while the former […]

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pqsfinder institution(s)
IT4Innovations Centre of Excellence, Faculty of Information Technology, Brno University of Technology, Brno, Czech Republic; Department of Information Technology, Faculty of Informatics, Masaryk University, Brno, Czech Republic
pqsfinder funding source(s)
Supported by the Czech Science Foundation [15-02891S], IT4Innovations excellence in science project of the Ministry of Education, Youth and Sports of the Czech Republic [IT4I XS – LQ1602] and ICT tools, methods and technologies for smart cities project of the Brno University of Technology [FIT-S-17-3964].

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