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IEDB / TCRMatch

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Query on Modified BLOSUM62 #54

Closed pzhang84 closed 7 months ago

pzhang84 commented 7 months ago

Hi Team,

Impressed with your work! I'm researching T cell receptor and epitope sequence binding. Could you share more details on how you modified BLOSUM62 for your project?

https://github.com/IEDB/TCRMatch/blob/master/src/tcrmatch.cpp#L83

Thanks, Pengfei

raphaeltrevizani commented 7 months ago

This is not a modified Blosum; these are the joint probabilities for Blosum62. You can find it in the code for Blast, for instance https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/lxr/source/src/algo/blast/composition_adjustment/matrix_frequency_data.c starting at l.385