@@ -9,6 +9,9 @@ HOGVAX uses the Gurobi solver for which a license is required. Further informati
## Data
HLA haplotype and allele frequencies, binding affinity predictions, and input peptides are available in [Sciebo](https://uni-duesseldorf.sciebo.de/s/jRTn9Vpff78kLqi)(~2GB). You can use the [download script](download_data.sh) to download and extract the data directly.
## HOGVAX GitHub Repository
the repo will be hosted on [GitHub](https://github.com/AlBi-HHU/hogvax) in the future.
## Snakemake Pipeline
The pipeline can be used to execute HOGVAX or the OCG approach. Additionally, the concatenation approach is always executed. Use the the [config file](Pipeline/envs/config.yaml) to adjust parameters for your execution. The pipeline can optionally be used for regional context embedding computations. Open a shell in the [Pipeline](Pipeline/) directory and execute the pipeline after adjusting the config file as follows:
