pypath.core.annot§

members:

Functions

get_db([keep_annotators, create_dataframe, ...])

Retrieves the current database instance and initializes it if does not exist yet.

init_db([keep_annotators, create_dataframe, ...])

Initializes or reloads the annotation database.

Classes

Adhesome(**kwargs)

Almen2009([ncbi_tax_id])

AnnotationBase(name[, ncbi_tax_id, ...])

AnnotationTable([proteins, complexes, ...])

Baccin2019([ncbi_tax_id])

Biogps([ncbi_tax_id])

CancerGeneCensus(**kwargs)

Cancerdrugsdb(**kwargs)

Cancersea(**kwargs)

CellPhoneDB(**kwargs)

CellPhoneDBComplex(**kwargs)

CellSurfaceProteinAtlas([ncbi_tax_id])

CellSurfaceProteinAtlasCellType([ncbi_tax_id])

Cellcall(**kwargs)

Cellcellinteractions([ncbi_tax_id])

Cellchatdb(**kwargs)

CellchatdbComplex(**kwargs)

Cellinker([ncbi_tax_id])

CellinkerComplex([ncbi_tax_id])

Celltalkdb(**kwargs)

Celltypist([ncbi_tax_id])

Comppi(**kwargs)

Connectomedb(**kwargs)

Corum(name, annot_attr, **kwargs)

CorumFuncat(**kwargs)

CorumGO(**kwargs)

Cpad([ncbi_tax_id])

CustomAnnotation([class_definitions, ...])

Cytosig([ncbi_tax_id])

Dgidb(**kwargs)

Disgenet([ncbi_tax_id])

Embrace([ncbi_tax_id])

Exocarta([ncbi_tax_id])

GOCustomIntercell([categories, go_annot, ...])

GOIntercell([categories, go_annot, ncbi_tax_id])

Gpcrdb([ncbi_tax_id])

GuideToPharmacology([load_sources])

HPO(**kwargs)

Hgnc(**kwargs)

HpmrComplex(**kwargs)

HumanPlasmaMembraneReceptome(**kwargs)

HumanProteinAtlas(**kwargs)

HumanProteinAtlasSecretome(**kwargs)

HumanProteinAtlasSubcellular(**kwargs)

Humancellmap([ncbi_tax_id])

Icellnet(**kwargs)

IcellnetComplex(**kwargs)

Integrins(**kwargs)

InterPro([ncbi_tax_id])

Intogen(**kwargs)

Italk([ncbi_tax_id])

KeggPathways([ncbi_tax_id])

KeggPathwaysPC([ncbi_tax_id])

Kinasedotcom(**kwargs)

Kirouac2010([load_sources])

Lambert2018([ncbi_tax_id])

LigandReceptor(name[, ligand_col, ...])

Locate([ncbi_tax_id, literature, external, ...])

Lrdb(**kwargs)

Matrisome([ncbi_tax_id])

Matrixdb([ncbi_tax_id])

Mcam(**kwargs)

Membranome(**kwargs)

Msigdb([ncbi_tax_id])

NetpathPathways([ncbi_tax_id])

Opm([ncbi_tax_id])

Panglaodb([ncbi_tax_id])

Phobius(**kwargs)

Phosphatome(**kwargs)

Progeny([ncbi_tax_id])

Ramilowski2015([load_sources])

Ramilowski2015Location(**kwargs)

Scconnect([ncbi_tax_id])

ScconnectComplex([ncbi_tax_id])

SignalinkFunctions([ncbi_tax_id])

SignalinkPathways([ncbi_tax_id])

SignorPathways([ncbi_tax_id])

Surfaceome(**kwargs)

Talklr(**kwargs)

Tcdb([ncbi_tax_id])

Tfcensus(**kwargs)

Topdb([ncbi_tax_id])

UniprotFamilies([ncbi_tax_id])

UniprotKeywords([ncbi_tax_id])

UniprotLocations([ncbi_tax_id])

UniprotTissues([ncbi_tax_id])

UniprotTopologies([ncbi_tax_id])

Vesiclepedia([ncbi_tax_id])

Wang([ncbi_tax_id])

Zhong2015(**kwargs)