To install this package, start R and enter:

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

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

seqPattern

DOI: 10.18129/B9.bioc.seqPattern    

This is the development version of seqPattern; for the stable release version, see seqPattern.

Visualising oligonucleotide patterns and motif occurrences across a set of sorted sequences

Bioconductor version: Development (3.6)

Visualising oligonucleotide patterns and sequence motifs occurrences across a large set of sequences centred at a common reference point and sorted by a user defined feature.

Author: Vanja Haberle <vanja.haberle at gmail.com>

Maintainer: Vanja Haberle <vanja.haberle at gmail.com>

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

Installation

To install this package, start R and enter:

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("seqPattern")

 

PDF R Script seqPattern
PDF   Reference Manual
Text   NEWS

Details

biocViews SequenceMatching, Software, Visualization
Version 1.9.0
In Bioconductor since BioC 3.1 (R-3.2) (2.5 years)
License GPL-3
Depends methods, R (>= 2.15.0)
Imports Biostrings, GenomicRanges, IRanges, KernSmooth, plotrix
LinkingTo
Suggests BSgenome.Drerio.UCSC.danRer7, CAGEr, RUnit, BiocGenerics, BiocStyle
SystemRequirements
Enhances parallel
URL
Depends On Me
Imports Me genomation
Suggests Me
Build Report  

Package Archives

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

Source Package seqPattern_1.9.0.tar.gz
Windows Binary seqPattern_1.9.0.zip
Mac OS X 10.11 (El Capitan) seqPattern_1.9.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/seqPattern
Package Short Url http://bioconductor.org/packages/seqPattern/
Package Downloads Report Download Stats

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