R package for tag count comparison
This package provides functions for performing differential expression
analysis using differentially expressed gene elimination strategy.
A simple unified interface is provided which encapsulates functions
to calculate normalization factors and estimate differentially
expressed genes defined in edgeR, baySeq, and DESeq packages.
The appropriate combination provided by TCC allows a more robust
and accurate estimation performed easily than directly using original packages.
Functions to produce simulation data under various conditions and to plot the data are also provided.
Documents of this software are available at
http://www.iu.a.u-tokyo.ac.jp/~kadota/TCC/
in addition to the documents included in the software package.
The development version is now on the github repository at https://github.com/tomoakin/TCC
Release of this software is made through CRAN at http://cran.r-project.org/web/packages/TCC/
This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License version 2 (GPL-2).
A copy of GPL-2 is accompanied in this directory in a file named COPYING.
Sun Jianqiang, Tomoaki Nishiyama, Kentaro Shimizu, and Koji Kadota