Man pages for bhklab/AnnotationGx
AnnotationGx: A package for building, updating and querying an annotation database for pharmaco-genomic data

annotateCellAccessionAnnotate Cell Accession
annotatePubchemCompoundAnnotate PubChem Compound
AnnotationGx-packageAnnotationGx: AnnotationGx: A package for building, updating...
AttributeInfoBioMart Attribute Information Class
AttributeSetBioMart Attribute Set Class
BioMartClientBioMart API Client
bm_query_builderBuild BioMart Query XML
CCLE_sampleMetadataCCLE_sampleMetadata is some preprocessed sample metadata from...
CCLE_treatmentMetadataCCLE_treatmentMetadata is some preprocessed treatment...
cellosaurusAPIVersionGet the Cellosaurus API version
cellosaurus_fieldsGet the list of fields in the Cellosaurus schema
cleanCharacterStringsClean character strings by removing special characters and...
CTRP_sampleMetadataCTRP_sampleMetadata is some preprocessed sample metadata from...
CTRP_treatmentMetadataCTRP_treatmentMetadata is some preprocessed treatment...
DatasetInfoBioMart Dataset Information Class
FilterInfoBioMart Filter Information Class
gCSI_sampleMetadatagCSI_sampleMetadata is some preprocessed sample metadata from...
gCSI_treatmentMetadatagCSI_treatmentMetadata is some preprocessed treatment...
GDSC_sampleMetadatagdsc_sampleMetadata is some preprocessed sample metadata from...
GDSC_treatmentMetadataGDSC_treatmentMetadata is some preprocessed treatment...
getChemblFilterTypesGet the Chembl filter types
getChemblMechanismGet ChEMBL Mechanism
getChemblResourceFieldsGet the fields of a Chembl resource
getChemblResourcesgetChemblResources function
getOncotreeMainTypesGet the main types from the Oncotree database.
getOncotreeTumorTypesGet the tumor types from the Oncotree database.
getOncotreeVersionsGet available Oncotree versions
getPubchemAnnotationHeadingsGet annotation headings (name only) based on type and heading...
getPubchemCompoundRetrieve PubChem compound information
getPubchemPropertiesRetrieves the PubChem XML schema and extracts property...
getPubchemStatusRetrieves the status of a PubChem request
getUnichemSourcesGet the list of sources in UniChem.
mapCell2AccessionMap Cell Line IDs to Accession Numbers
mapCID2PropertiesMap PubChem Compound IDs to Properties
mapCompound2CIDMap compound names to PubChem CIDs
MartInfoBioMart Information Class
matchNestedMatch inside nested elements
queryChemblAPIQuery the ChEMBL API
query_hgnc_by_genesQuery HGNC BioMart by Gene Symbols
queryUnichemCompoundQuery UniChem for a compound.
standardize_namesStandardize Names
strSplitSplit a character vector into a matrix based on a delimiter
unlistNestedUnlists a nested list and removes NA values and duplicates.
bhklab/AnnotationGx documentation built on April 3, 2025, 4:27 p.m.