Python Module Index

c | e | f | h | i | r | t | v


	c
	`CleavagePrediction`	Factory classes for cleavage site and fragment prediction. This is the entry point to all cleavage prediction methods.
	`CleavagePrediction.ANN`	This module contains all classes for external cleavage prediction methods.
	`CleavagePrediction.PSSM`	PSSM-based cleavage prediction methods.
	`Core`
	`Core.Allele`	HLA Allele class.
	`Core.AResult`	Contains relevant classes describing results of predictions.
	`Core.Base`	This module contains base classes for all other modules.
	`Core.Transcript`	Contains the Transcript Class.

	e
	`EpitopeAssembly`
	`EpitopeAssembly.EpitopeAssembly`	This module contains all classes for EpitopeAssembly.
	`EpitopePrediction`
	`EpitopePrediction.ANN`	This module contains all classes for ANN-based epitope prediction methods.
	`EpitopePrediction.PSSM`	This module contains all classes for PSSM-based epitope prediction.
	`EpitopePrediction.SVM`	This module contains all SVM-based epitope prediction tools

	f
	`Fred2`
	`Fred2.CleavagePrediction`
	`Fred2.CleavagePrediction.External`
	`Fred2.CleavagePrediction.PSSM`
	`Fred2.Core.Allele`
	`Fred2.Core.Base`
	`Fred2.Core.Generator`
	`Fred2.Core.Peptide`
	`Fred2.Core.Protein`
	`Fred2.Core.Result`
	`Fred2.Core.Transcript`
	`Fred2.Core.Variant`
	`Fred2.EpitopeAssembly.EpitopeAssembly`
	`Fred2.EpitopePrediction.External`
	`Fred2.EpitopePrediction.PSSM`
	`Fred2.EpitopePrediction.SVM`
	`Fred2.HLAtyping.External`
	`Fred2.IO.FileReader`
	`Fred2.IO.MartsAdapter`
	`Fred2.IO.RefSeqAdapter`
	`Fred2.IO.UniProtAdapter`
	`Fred2.TAPPrediction`
	`Fred2.TAPPrediction.PSSM`
	`Fred2.TAPPrediction.SVM`

	h
	`HLAtyping`
	`HLAtyping.External`	This module contains all classes for HLA typing with external methods.

	i
	`IO`
	`IO.MartsAdapter`	BDB-Adapter for BioMart
	`IO.RefSeqAdapter`	DB-Adapter class for RefSeq
	`IO.UniProtAdapter`	DB-Adapter class for UniProt

	r
	`Reader`	Module handles reading of files. line reading, FASTA reading, annovar reading

	t
	`TAPPRediction`	Base class for TAP prediction methods
	`TAPPrediction`
	`TAPPrediction.PSSM`	This module contains all PSSM-based TAP prediction tools
	`TAPPrediction.SVM`	This module contains all SVM-based TAP prediction tools

	v
	`Variant`	Contains relevant classes describing variants.