If a "core" epitope in a pVACvector input fasta sequence is located close to the start or end of the sequence, it could potentially get clipped. We should update pVACvector to prevent this. However, input fastas currently don't contain information about the location of the core epitope in the sequence. This update could be accomplish as follows:

• When creating a protein fasta using any of the generate_protein_fasta commands in combination with an input filtered.tsv of aggreated.tsv, mark the location of the epitopes from those tsvs in relation to the result protein sequence in the fasta headers.
• Use the information from the fasta headers to prevent pVACvector from clipping the core epitope.