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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 |
| 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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