To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("pqsfinder")

In most cases, you don't need to download the package archive at all.

pqsfinder

 

   

Identification of potential quadruplex forming sequences

Bioconductor version: Release (3.5)

The main functionality of the 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>

Citation (from within R, enter citation("pqsfinder")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("pqsfinder")

Documentation

HTML R Script pqsfinder: User Guide
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews GeneRegulation, MotifDiscovery, SequenceMatching, Software
Version 1.4.0
In Bioconductor since BioC 3.3 (R-3.3) (1 year)
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
SystemRequirements GNU make, C++11
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source pqsfinder_1.4.0.tar.gz
Windows Binary pqsfinder_1.4.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) pqsfinder_1.4.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/pqsfinder/tree/release-3.5
Package Short Url http://bioconductor.org/packages/pqsfinder/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: