ORCA - H1-ESC (1M) Predictor for GAME

The ORCA_H1ESC_1M_predictor.sif contains the following:

• The scripts required to process, error check and predict in the GAME API format for 1M H1-ESC Hi-C model
• A .json file to return for help message requests
• All dependencies, scripts, model weights and hg38 ref genome required to run the ORCA model are downloaded into the container at build time

How to run:

Notes:

• The container can be run using the --nv flag for GPU compatibility
• This version of the container can only predict for H1-ESC cells in homo_sapiens
• Each sequence prediction returns a matrix with each value representing a 4,000bp x 4,000bp interaction region. For example, for a 1Mbp input sequence the returned matrix will be 250x250

Additional information regarding ORCA can be found here: https://github.com/jzhoulab/orca

Additional information regarding the API can be found here: https://github.com/de-Boer-Lab/Genomic-API-for-Model-Evaluation