Closed anuprulez closed 8 months ago
The PR adds a tool that uses an RF model, downloaded via a Docker container, to predict the efficacy of immune checkpoint blockage on the provided test data. The RF model is available via BioModels (https://www.ebi.ac.uk/biomodels/BIOMD0000001066). The Docker container available in BioModels (https://www.ebi.ac.uk/biomodels/BIOMD0000001066#Files) for prediction has been customised to reduce its uncompressed size (by half, from over 4 GBs to less than 2). The newly developed container is linked in the tool (docker.io/anupkumar/immune-checkpoint:latest) and also stored on Docker Hub (https://hub.docker.com/repository/docker/anupkumar/biomd0000001066/general). The script used to create this customised container is available on GitHub (https://github.com/anuprulez/biomodelsml-docker/tree/master/rf_immune_checkpoints_blockage).
test file(s): test_data.xlsx test_data.csv
Use one of these files to test the tool on Galaxy server.
Tool's UI (on a local Galaxy instance):
ping @bgruening
The PR adds a tool that uses an RF model, downloaded via a Docker container, to predict the efficacy of immune checkpoint blockage on the provided test data. The RF model is available via BioModels (https://www.ebi.ac.uk/biomodels/BIOMD0000001066). The Docker container available in BioModels (https://www.ebi.ac.uk/biomodels/BIOMD0000001066#Files) for prediction has been customised to reduce its uncompressed size (by half, from over 4 GBs to less than 2). The newly developed container is linked in the tool (docker.io/anupkumar/immune-checkpoint:latest) and also stored on Docker Hub (https://hub.docker.com/repository/docker/anupkumar/biomd0000001066/general). The script used to create this customised container is available on GitHub (https://github.com/anuprulez/biomodelsml-docker/tree/master/rf_immune_checkpoints_blockage).
test file(s): test_data.xlsx test_data.csv
Use one of these files to test the tool on Galaxy server.
Tool's UI (on a local Galaxy instance):
ping @bgruening