Implementation of the Precision Lasso in this paper:
Haohan Wang, Benjamin J Lengerich, Bryon Aragam, Eric P Xing, Precision Lasso: accounting for correlations and linear dependencies in high-dimensional genomic data, Bioinformatics, Volume 35, Issue 7, 01 April 2019, Pages 1181–1187, https://doi.org/10.1093/bioinformatics/bty750
The Precision Lasso is a Lasso variant for variable selection when there are correlated and linearly dependent variables existing.
Replication: This repository serves for the purpose to guide others to use our tool, if you are interested in the scripts to replicate our results, please contact us and we will share the repository for replication. Contact information is at the bottom of this page.
python runPL.py -t csv -n data/toy
FileReader
in utility/dataLoadear
. Feel free to contact us for the support of other data format. You will need to have numpy and scipy installed on your current system. You can install precision lasso using pip by doing the following
pip install git+https://github.com/HaohanWang/thePrecisionLasso
You can also clone the repository and do a manual install.
git clone https://github.com/HaohanWang/thePrecisionLasso
python setup.py install
Proficient python users can directly call the Precision Lasso with python code, see the example here