LICENSE
README.md
setup.cfg
setup.py
Seq2Neo.egg-info/PKG-INFO
Seq2Neo.egg-info/SOURCES.txt
Seq2Neo.egg-info/dependency_links.txt
Seq2Neo.egg-info/entry_points.txt
Seq2Neo.egg-info/requires.txt
Seq2Neo.egg-info/top_level.txt
seq2neo/__init__.py
seq2neo/main.py
seq2neo/function/__init__.py
seq2neo/function/_fastp.py
seq2neo/function/_sam2bam.py
seq2neo/function/Agfusion/__init__.py
seq2neo/function/Agfusion/_agfusion.py
seq2neo/function/GATK_Best_Practice/__init__.py
seq2neo/function/GATK_Best_Practice/_bqsr.py
seq2neo/function/GATK_Best_Practice/_markduplacte.py
seq2neo/function/GATK_Best_Practice/_sortBam.py
seq2neo/function/HLA_typing/__init__.py
seq2neo/function/HLA_typing/_hlahd.py
seq2neo/function/Mutation_Calling/__init__.py
seq2neo/function/Mutation_Calling/_calculatecontamination.py
seq2neo/function/Mutation_Calling/_filtermutectcalls.py
seq2neo/function/Mutation_Calling/_getpileupsummaries.py
seq2neo/function/Mutation_Calling/_learnreadorientationmodel.py
seq2neo/function/Mutation_Calling/_mutect2.py
seq2neo/function/Mutation_Calling/_selectpass.py
seq2neo/function/Neoantigen_Prediction/__init__.py
seq2neo/function/Neoantigen_Prediction/_annovar.py
seq2neo/function/Neoantigen_Prediction/_mutpeptide_extract.py
seq2neo/function/Neoantigen_Prediction/_predbinding.py
seq2neo/function/Neoantigen_Prediction/mhci/__init__.py
seq2neo/function/Neoantigen_Prediction/mhci/_netmhcpan41.py
seq2neo/function/Neoantigen_Prediction/tap/__init__.py
seq2neo/function/Neoantigen_Prediction/tap/_netCTLpan.py
seq2neo/function/STAT_Fusion/__init__.py
seq2neo/function/STAT_Fusion/_starFusion.py
seq2neo/function/TPMCalculator/__init__.py
seq2neo/function/TPMCalculator/_tpmcalculator.py
seq2neo/function/immuno_Prediction/__init__.py
seq2neo/function/immuno_Prediction/_cnn.py
seq2neo/function/immuno_Prediction/data/class1_pseudosequences.csv
seq2neo/function/immuno_Prediction/data/test_input.csv
seq2neo/function/immuno_Prediction/data/weights/cnn/checkpoint
seq2neo/function/immuno_Prediction/data/weights/cnn/success_weight_test.data-00000-of-00001
seq2neo/function/immuno_Prediction/data/weights/cnn/success_weight_test.index
seq2neo/lib/__init__.py
seq2neo/lib/_make_dir.py
seq2neo/lib/_movefile.py
seq2neo/lib/_toTable.py
seq2neo/lib/add_tap_ic50.py
seq2neo/lib/arg_download.py
seq2neo/lib/arg_immunoprediction.py
seq2neo/lib/arg_main.py
seq2neo/lib/arg_whole.py
seq2neo/lib/filtersPrediction.py
seq2neo/lib/toBAM.py
seq2neo/lib/toFasta.py
seq2neo/lib/toGeneFusion.py
seq2neo/lib/toVCF.py
seq2neo/lib/tpmCalculation.py
seq2neo/lib/windows_sliding.py
seq2neo/model/__init__.py
seq2neo/model/download.py
seq2neo/model/immunoprediction.py
seq2neo/model/whole.py