lol - lots of lassos
The package contains various optimization methods for matrix-to-matrix Lasso inference, such as cross-validation, randomised lasso, subsampling lasso etc. It is specifically designed for multicollinear predictor variables. Therefore, lol is particularly suitable for association study to delineate the trans-regulation relations between DNA copy number abberations and RNA expression levels.
Download and Installation
You can download the package from Bioconductor.
To install this package directly in R type:
source("http://bioconductor.org/biocLite.R")
biocLite("lol")
References
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A sparse regulatory network of copy-number driven gene expression reveals putative breast cancer oncogenes
Y. Yuan, C. Curtis, C. Caldas, F. Markowetz
IEEE/ACM Trans Comput Biol Bioinform. 2011 Jul 20
PMID:21788678 | doi:10.1109/TCBB.2011.105 | arXiv:1010.1409
