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>

To install this package, start R and enter:

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

To cite this package in a publication, start R and enter:

    citation("clonotypeR")

Documentation

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

Details

biocViews Sequencing, Software
Version 1.2.0
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 Downloads

Package Source clonotypeR_1.2.0.tar.gz
Windows Binary clonotypeR_1.2.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) clonotypeR_1.2.0.tgz
Mac OS X 10.9 (Mavericks)
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