Package: dbparser 2.3.0

Mohammed Ali

dbparser: Drugs Databases Parser

Parses drug and gene databases from their downloaded files: the 'DrugBank' XML database <https://go.drugbank.com/>, the 'OnSIDES' and 'TWOSIDES' adverse drug event databases, Human Phenotype Ontology ('HPO') gene-phenotype associations, the 'HGNC' gene nomenclature files, Health Canada's Drug Product Database ('DPD') data extract, and the 'openFDA' 'Drugs@FDA' and 'NDC' directory downloads. The parsed tables are returned in an 'R' object called 'dvobject', which records the source release, licence and file hashes.

Authors:Mohammed Ali [aut, cre], Ali Ezzat [aut], Hao Zhu [rev], Emma Mendelsohn [rev], Interstellar [cph, fnd]

dbparser_2.3.0.tar.gz
dbparser_2.3.0.zip(r-4.7-any)dbparser_2.3.0.zip(r-4.6-any)dbparser_2.3.0.zip(r-4.5-any)
dbparser_2.3.0.tgz(r-4.6-any)dbparser_2.3.0.tgz(r-4.5-any)
dbparser_2.3.0.tar.gz(r-4.7-any)dbparser_2.3.0.tar.gz(r-4.6-any)
dbparser_2.3.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
dbparser/json (API)

# Install 'dbparser' in R:
install.packages('dbparser', repos = c('https://packages.ropensci.org', 'https://cloud.r-project.org'))

Reviews:rOpenSci Software Review #347

Bug tracker:https://github.com/ropensci/dbparser/issues

Pkgdown/docs site:https://docs.ropensci.org

On CRAN:

Conda:

9.86 score 67 stars 253 scripts 661 downloads 4 mentions 20 exports 23 dependencies

Last updated from:4d7afe63bb. Checks:10 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-develOK180
pkgdown docsOK280
source / vignettesOK394
linux-releaseOK158
macos-releaseOK139
macos-oldrelOK120
windows-develOK153
windows-releaseOK228
windows-oldrelOK190
wasm-releaseOK131

Exports:add_database_infocett_nodes_optionsdrug_node_optionsget_genes_for_phenotypeget_source_metadatamerge_drugbank_hpomerge_drugbank_onsidesmerge_drugbank_twosidesparseDrugBankparseHealthCanadaDPDparseHGNCparseHPOparseOnSIDESparseOpenFDAparseTWOSIDESreferences_node_optionssearch_phenotypesshow_dvobject_metadatasubset_drugbank_dvobjectsubset_onsides_dvobject

Dependencies:clicrayondata.tabledplyrgenericsgluehmsjsonlitelifecyclemagrittrpillarpkgconfigprettyunitsprogresspurrrR6rlangtibbletidyselectutf8vctrswithrXML

Introducing dbparser 2.2.0
The "Hub and Spoke" Architecture | Pipeline-Ready Pharmacovigilance | New Tools for Reproducibility | A Scientific Case Study | Availability
Rendered fromdbparser_2_2.Rmdusingknitr::rmarkdown

Last update: 2026-11-07
Started: 2025-12-27

Drug Mechanism Profiling with CETT Actions
Introduction | Scientific case: finding a mechanistic substitute for lepirudin | Prerequisites | 1. Parse the DrugBank records | 2. Target actions now carry the drug | Why the drug link matters | 3. Map the targets to genes | 4. Find drugs that share lepirudin's mechanism | 5. Compare the wider interaction profiles | Summary
Rendered fromcett_mechanisms.Rmdusingknitr::rmarkdown

Last update: 2026-11-07
Started: 2026-11-06

Getting started with dbparser
A DrugBank record | The HGNC gene nomenclature | More
Rendered fromgetting_started.Rmdusingknitr::rmarkdown

Last update: 2026-11-07
Started: 2026-11-07