To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("clonotypeR")

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

clonotypeR

High throughput analysis of T cell antigen receptor sequences

Bioconductor version: Release (2.14)

High throughput analysis of T cell antigen receptor sequences The genes encoding T cell receptors are created by somatic recombination, generating an immense combination of V, (D) and J segments. Additional processes during the recombination create extra sequence diversity between the V an J segments. Collectively, this hyper-variable region is called the CDR3 loop. . The purpose of this package is to process and quantitatively analyse millions of V-CDR3-J combination, called clonotypes, from multiple sequence libraries.

Author: Charles Plessy <plessy at riken.jp>

Maintainer: Charles Plessy <plessy at riken.jp>

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

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("clonotypeR")

Documentation

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

browseVignettes("clonotypeR")

 

HTML R Script clonotypeR User's Guide
PDF   Reference Manual
Text   README
Text   NEWS
Text   LICENSE

Details

biocViews Sequencing, Software
Version 1.2.1
In Bioconductor since BioC 2.13 (R-3.0)
License file LICENSE
Depends methods
Imports
Suggests BiocGenerics, edgeR, knitr, pvclust, RUnit, vegan
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Archives

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

Package Source clonotypeR_1.2.1.tar.gz
Windows Binary clonotypeR_1.2.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) clonotypeR_1.2.1.tgz
Mac OS X 10.9 (Mavericks) clonotypeR_1.2.1.tgz
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