cls Namespace Reference

Namespaces
	AnnotationCorpus
	Annotation corpus container.
	ArgumentParserBase
	Argument parsing.
	Background
	ClinVarAnnotation
	Class for accessing the ClinVar data.
	ClinVarData
	Class for handeling the ClinVar data.
	COBOparser
	Implementation of an obo file parser.
	DefaultTable
	Utility classes for reading/writing tab separated tabular data.
	DMGeneIdConversion
	Provide gene ID conversions for Drosophila melanogaster.
	DrugBankAnnotation
	Annotation of proteins involved in drugs.
	DrugBankDrug
	Information on a single drug.
	DrugBankParser
	Parsing of DrugBank XML file.
	DrugBankPartner
	Information on a single drug interaction partner.
	Enrichment
	FunctionalSimilarity
	Similarity of proteins based on semantic similarity.
	GAFReader
	GO annotation file reader.
	GenericGeneIdConverter
	Command line implementation for conversion between different gene IDs.
	GlobalLDBlocks
	Handling of LD blocks, internal data.
	GODBAccess
	Class for accessing Gene Ontology data.
	GOGraph
	Wrapper module for GO graph access.
	GOGraphBase
	Base class implementation for Gene Ontology graphs.
	GOGraphIGraph
	python-igraph implementation of GO Graph.
	GOGraphNetworkX
	python-networkx implementation of GO Graph.
	GOGraphNode
	Definition of Gene Ontology node content.
	GOOboParser
	HGMDAnnotation
	Class for accessing the HGMD data.
	HSEnsgene
	Information on human Ensembl genes.
	HSEnsgProteinMapping
	Provide Ensembl gene ID to Ensembl protein ID mapping.
	HSGeneAtlasHandling
	Tissue specific gene expression by GNF.
	HSGeneIdConversion
	Provide gene ID conversions for human.
	HSGeneOrthologyMapping
	Provide orthology-based mappings for Homo sapiens.
	IDRetrieval
	Retrieve all identifiers/accessions of a certain type.
	Int2Genes
	MendelianFiltering
	Filtering of variants according to an assumed Mendelian mode of inheritance.
	MetaRanking
	Implements ranking of multiple columns as done by MetaRanker.
	MITABAccess
	Class for accessing the interaction data from MITAB files.
	MITABDBAccess
	Class for accessing the interaction data that has been stored in a database.
	PairwiseMapperBase
	Base class for mappings of key-value pairs.
	PharmaADMEntoring
	Variant annotation through PharmaADME core list markers.
	Pos2LDBlockMapping
	ReactomeAccess
	Retrieve pathway information from Reactome.
	ReactomeBiopaxParser
	Parses a Biopax level 3 file to provide its content to an accessor class.
	SemanticSimilarity
	Computations for GO semantic similarity.
	StaticRTree
	Implementation for an R-tree given a set of intervals.
	Stats
	Collection of statistics tools.
	TableJoin
	Join two unsorted tables.
	Variant
	Module for comparing variants.
	VCF2Dintegrator
	Conversion of VCF file format to Dintegrator format.