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bm2-lab / pTuneos

pTuneos: prioritizing Tumor neoantigen from next-generation sequencing data
MIT License
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A bug in neo_pyclone_annotation.py #5

Open songofbin opened 4 years ago

songofbin commented 4 years ago

Some positive pMHC are missing in my pTuneos results. I think that's because of a bug in the 119 line of the neo_pyclone_annotation.py script. People should change it:

from data_drop=data_fill_na.drop_duplicates(subset=["Gene","MT_pep","WT_pep"]) to data_drop=data_fill_na.drop_duplicates(subset=["HLA_type","Gene","MT_pep","WT_pep"])

ChiZhou-SITI commented 4 years ago

Yes, if you want to get pMHC pairs from the results, HLA type should also be taken into consideration when drop duplicates. We will fix it later. Thank you for your suggestion!