Modeling non-uniformity in short-read rates in RNA-Seq data This package implements all the methods in the paper "Modeling non-uniformity in short-read rates in RNA-Seq data". Especially, it implements both the iterative glm procedure for the Poisson linear model and the training procedure of the MART model. The cross-validation for both of the methods is also implemented. Version 1.1 and later also implements the Poisson linear model with dinucleotide composition. Version 1.2 corrected a bug in expData.R. This bug leads to mis-labeled lines in plotCoef.R, but will not change other parts like training, testing, or cross-validation. Software Depends: R(>= 2.5),gbm Jun Li <junli07@stanford.edu> Jun Li GPL (>= 2) 2011-09-08 application/tgz http://CRAN.R-project.org/package=mseq