Repository of scripts and data for reproducing analysis in Miller et al. 2020
Copy and paste the following code to recreate the paper's Conda environment and run all analyses:
git clone https://github.com/Bishop-Laboratory/ewing_sarcoma_miller_cancers_2020.git
cd ewing_sarcoma_miller_cancers_2020/
conda env create -f environment.yml
conda activate ewsPaperEnv
(Rscript generateFiguresV2.R) |& tee generateFigures_logFile.txt
Conda can be used to quickly and easily recreate the analysis environment from this paper. It must be installed and available to the $PATH variable. To do this, download Miniconda3 and follow the installation instructions.
Open the R project file ewsBioinformaticsPaperRepo.Rproj in R-Studio to easily interact with the analysis scripts.
You are welcome to re-use the analysis code and helper functions from this paper, but please cite it appropriately. Also, any issues or bugs in the analysis script should be reported here and/or you can email the code maintainer at [email protected].