Somatic Neoepitope Prediction

Implementation of the somatic_neoepitope_prediction step

The somatic_neoepitope_prediction step allows for the prediction of neoepitopes from somatic (small) variant calling results and a transcript database such as ENSEMBL. Further, the step allows for the binding prediction to a given set of HLA alleles.

Note

Status: not implemented yet

Step Input

Note

TODO

Step Output

Note

TODO

Default Configuration

The default configuration is as follows.

step_config:
  somatic_neoepitope_prediction:
    path_somatic_variant_calling: REQUIRED  # REQUIRED