mseq (1.2)

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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.

Maintainer: Jun Li
Author(s): Jun Li

License: GPL (>= 2)

Uses: gbm
Reverse depends: lmbc

Released almost 6 years ago.

2 previous versions



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