Datasets
Models
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Download and unpack data
wget https://bimsbstatic.mdc-berlin.de/akalin/buyar/flexynesis-benchmark-datasets/ccle_vs_gdsc.tgz
tar -xzvf ccle_vs_gdsc.tgz
Define bash script to run multiple experiments:
=> see run_experiments.sh
mkdir output
srun --gpus=1 bash run_experiments.sh > log
Final report: See analyse_experiments.ipynb
If you'd like to see a more elaborate pipeline that addresses such a benchmarking exercise, check out our benchmarking pipeline for Flexynesis:
https://github.com/BIMSBbioinfo/flexynesis-benchmarks