File "FragmentLibrary.fst" is wanted

masato-ogishi / Repitope

Epitope immunogenicity prediction through in silico TCR-peptide contact potential profiling.

MIT License

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File "FragmentLibrary.fst" is wanted #6

Closed songofbin closed 5 years ago

songofbin commented 5 years ago

I'm wondering if you could offer the FragmentLibrary.fst file you used to build the FeatureDF_MHCI_Weighted.10000.fst file. It seems like I could't get the same ImmunogenicityScore of the 21162 MHCI peptides with the FragmentLibrary.fst file built by myself.

masato-ogishi commented 5 years ago

Here's the script to generate the fragment library. library(Repitope) fragLibDT <- CPP_FragmentLibrary(TCRSet_Public, fragLenSet=3:11, maxFragDepth=100000, seedSet=1:5) fst::write_fst(fragLibDT, "./TCRRepertoire/FragmentLibrary_TCRSet_Public.fst", compress=0) I'm pretty sure this is reproducible.