April 26, 2017 Type Package Title Empirical Bayesian approach to mutational signature discovery Version 1.2.0 Author Rafael Rosales, Rodrigo Drummond, Renan Valieris, Israel Tojal da Silva Maintainer Renan Valieris Description The signeR package provides an empirical Bayesian approach to mutational signature discovery. It is designed to analyze single nucl...

April 14, 2017 Title Bayesian Robust Inference for Differential Gene Expression Version 1.38.0 Author Raphael Gottardo Description Test for differentially expressed genes with microarray data. This package can be used with both cDNA microarrays or Affymetrix chip. The packge fits a robust Bayesian hierarchical model for testing for differential expression. Outliers are modeled explicitly using ...

July 18, 2013 Version 1.32.1 Date 2011-02-09 Title A ‘‘corrective make-up’’ program for microarray chips Author Mayte Suarez-Farinas, Maurizio Pellegrino, Knut M. Wittkowski, Marcelo O. Magnasco Maintainer Maurizio Pellegrino Depends R (>= 2.10) Imports affy, altcdfenvs, Biobase, stats, utils Description The package is used to detect extended, diffuse and compact blemis...

September 23, 2013 Version 1.28-19 Date 23 Sep 2013 Title Tools for analyzing QTL experiments Author Karl W Broman and Hao Wu, with ideas from Gary Churchill and Saunak Sen and contributions from Danny Arends, Ritsert Jansen, Pjotr Prins, Laura Shannon, and Brian Yandell Maintainer Karl W Broman Description Analysis of experimental crosses t...

May 25, 2010 Version 1.16-6 Date 23 May 2010 Title Tools for analyzing QTL experiments Author Karl W Broman and Hao Wu, with ideas from Gary Churchill and Saunak Sen and contributions from Danny Arends, Ritsert Jansen, Pjotr Prins, and Brian Yandell Maintainer Karl W Broman Description Analysis of experimental crosses to identify genes (call...

February 15, 2013 Version 1.26-14 Date 27 Nov 2012 Title Tools for analyzing QTL experiments Author Karl W Broman and Hao Wu, with ideas from Gary Churchill and Saunak Sen and contributions from Danny Arends, Ritsert Jansen, Pjotr Prins, and Brian Yandell Maintainer Karl W Broman Description Analysis of experimental crosses to identify genes...

March 28, 2017 Title Bayesian Robust Inference for Differential Gene Expression Version 1.38.0 Author Raphael Gottardo Description Test for differentially expressed genes with microarray data. This package can be used with both cDNA microarrays or Affymetrix chip. The packge fits a robust Bayesian hierarchical model for testing for differential expression. Outliers are modeled explicitly using ...

April 26, 2017 Type Package Title TCC: Differential expression analysis for tag count data with robust normalization strategies Version 1.16.0 Author Jianqiang Sun, Tomoaki Nishiyama, Kentaro Shimizu, and Koji Kadota Maintainer Jianqiang Sun , Tomoaki Nishiyama Description This package provides a series of functions for performing dif...

The ongoing deficit of fresh water resource in rice growing regions has made the selection of water-saving and drought-resistance rice (WDR) a crucial factor in developing sustainable cultivation. HuHan2B, a new japonica maintainer for WDR breeding, had the same yield potential as recurrent parent HanFengB but showed improved drought resistance in fields. We investigated the genomic content acc...