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parameters.md

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Adjust this accordingly

output directory = results_smalltest_final

Set parameters

MHC-I method = netmhcpan_ba MHC-II method = netmhciipan_ba MHC-I sizes = 9,10 MHC-II sizes = 15 MHC-I threshold = 500 MHC-II threshold = 500 N-mer Step = 5 output graph = false

More advanced options

Population coverage directory = population_coverage_standalone HLA-I file = data/hla_ref_set.class_i.txt HLA-II file = data/hla_ref_set.class_ii.txt areas = data/areas.txt temporary directory = data/temp_pickle python path=python MHC-I predictor directory = /home/trevizani/prog/mhc_i MHC-II predictor directory = /home/trevizani/prog/mhc_ii