drugTargetInteractions-package {drugTargetInteractions}R Documentation

Drug-Target Interactions

Description

The drugTargetInteractions package provides utilities for identifying drug-target interactions for sets of small molecule or gene/protein identifiers. The required drug-target interaction information is obained from a local SQLite instance of the ChEMBL database.

Details

The DESCRIPTION file:

Package: drugTargetInteractions
Type: Package
Title: Drug-Target Interactions
Version: 1.0.0
Date: 2021-03-22
Authors@R: person("Thomas", "Girke", email="thomas.girke@ucr.edu", role=c("cre", "aut"))
Description: Provides utilities for identifying drug-target interactions for sets of small molecule or gene/protein identifiers. The required drug-target interaction information is obained from a local SQLite instance of the ChEMBL database. ChEMBL has been chosen for this purpose, because it provides one of the most comprehensive and best annotatated knowledge resources for drug-target information available in the public domain.
Depends: methods, R (>= 4.1)
Imports: utils, RSQLite, UniProt.ws, biomaRt,ensembldb, BiocFileCache,dplyr,rappdirs, AnnotationFilter, S4Vectors
Suggests: RUnit, BiocStyle, knitr, rmarkdown, ggplot2, reshape2, DT, EnsDb.Hsapiens.v86
VignetteBuilder: knitr
License: Artistic-2.0
NeedsCompilation: no
URL: https://github.com/longevity-consortium/LC_Chemoinformatics
biocViews: Cheminformatics, BiomedicalInformatics, Pharmacogenetics, Pharmacogenomics, Proteomics, Metabolomics
RoxygenNote: 7.1.1
BugReports: https://github.com/girke-lab/drugTargetInteractions
git_url: https://git.bioconductor.org/packages/drugTargetInteractions
git_branch: RELEASE_3_13
git_last_commit: be807a4
git_last_commit_date: 2021-05-19
Date/Publication: 2021-05-19
Author: Thomas Girke [cre, aut]
Maintainer: Thomas Girke <thomas.girke@ucr.edu>

Index of help topics:

cmpIdMapping            cmpIdMapping
downloadChemblDb        downloadChemblDb
downloadUniChem         downloadUniChem
drugTargetAnnot         drugTargetAnnot
drugTargetAnnotTable    drugTargetAnnotTable
drugTargetBioactivity   drugTargetBioactivity
drugTargetInteractions-package
                        Drug-Target Interactions
genConfig               genConfig
getDrugTarget           getDrugTarget
getParalogs             getParalogs
getSymEnsUp             Gene to Protein ID Mappings
getUniprotIDs           Retrieve UniProt IDs via ID and Cluster
                        Mappings
processDrugage          processDrugage
runDrugTarget_Annot_Bioassay
                        runDrugTarget_Annot_Bioassay
transformTTD            transformTTD

Author(s)

NA

Maintainer: NA


[Package drugTargetInteractions version 1.0.0 Index]