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

   

This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see pqsfinder.

Identification of potential quadruplex forming sequences

Bioconductor version: 3.3

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 1.0.2
In Bioconductor since BioC 3.3 (R-3.3) (< 6 months)
License BSD_2_clause + file LICENSE
Depends Biostrings
Imports Rcpp (>= 0.12.3), GenomicRanges, IRanges, S4Vectors, methods
LinkingTo Rcpp, BH, flowCore
Suggests BiocStyle, knitr, Gviz, rtracklayer, biomaRt, BSgenome.Hsapiens.UCSC.hg38
SystemRequirements GNU make
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_1.0.2.tar.gz
Windows Binary pqsfinder_1.0.2.zip (32- & 64-bit)
Mac OS X 10.9 (Mavericks) pqsfinder_1.0.2.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/pqsfinder/tree/release-3.3
Package Short Url http://bioconductor.org/packages/pqsfinder/
Package Downloads Report Download Stats

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