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Conditional Modulation of Gene Expression for Prediction of Cellular Sensitivity

Conference

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Description

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.

How to run

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

Imports

This project is setup as a package which means you can now easily import any file. Analyses can be found in project/notebooks/.

Citation

@article{YourName,
  title={Your Title},
  author={Your team},
  journal={Location},
  year={Year}
}

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