Evaluation of methods conditioning gene expression by small-molecule structure and dosage for prediction of cellular percent viability. Scripts for data downloads, preprocessing, training, and evaluation are provided in this repository.
First, install dependencies
# clone project
git clone https://github.com/wconnell/film-gex
# install project
cd film-gex
conda env create -f environment.yml
Next, navigate to any file and run it.
# data download (this will automatically create a few directories)
bash download.sh
# preprocessing and fold creation
python project/preprocess.py /some/output/dir/.
# training cross validation
python project/train.py --h
This project is setup as a package which means you can now easily import any file.
Analyses can be found in project/notebooks/
.
@article{YourName,
title={Your Title},
author={Your team},
journal={Location},
year={Year}
}