mseq: 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.
| Version: |
1.2 |
| Depends: |
R (≥ 2.5), gbm |
| Published: |
2011-09-08 |
| Author: |
Jun Li |
| Maintainer: |
Jun Li <junli07 at stanford.edu> |
| License: |
GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] (see file LICENSE) |
| NeedsCompilation: |
no |
| CRAN checks: |
mseq results |
Downloads:
Reverse dependencies: