DOI: 10.18129/B9.bioc.pqsfinder    

Identification of potential quadruplex forming sequences

Bioconductor version: Release (3.6)

The main functionality of this package is to detect DNA sequence patterns that are likely to fold into an intramolecular G-quadruplex (G4). Unlike many other approaches, this package is able to detect sequences responsible for G4s folded from imperfect G-runs containing bulges or mismatches and as such is more sensitive than competing algorithms.

Author: Jiri Hon, Matej Lexa and Tomas Martinek

Maintainer: Jiri Hon <jiri.hon at gmail.com>

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biocViews GeneRegulation, MotifDiscovery, SequenceMatching, Software
Version 1.6.3
In Bioconductor since BioC 3.3 (R-3.3) (2 years)
License BSD_2_clause + file LICENSE
Depends Biostrings
Imports Rcpp (>= 0.12.3), GenomicRanges, IRanges, S4Vectors, methods
LinkingTo Rcpp, BH (>= 1.62.0)
Suggests BiocStyle, knitr, Gviz, rtracklayer, ggplot2, BSgenome.Hsapiens.UCSC.hg38, testthat
SystemRequirements GNU make, C++11
Depends On Me
Imports Me
Suggests Me
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Source Package pqsfinder_1.6.3.tar.gz
Windows Binary pqsfinder_1.6.3.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) pqsfinder_1.6.3.tgz
Source Repository git clone https://git.bioconductor.org/packages/pqsfinder
Package Short Url http://bioconductor.org/packages/pqsfinder/
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