Package: PubChemR 2.1.2

Selcuk Korkmaz

PubChemR: Interface to the 'PubChem' Database for Chemical Data Retrieval

Provides an interface to the 'PubChem' database via the PUG REST <https://pubchem.ncbi.nlm.nih.gov/docs/pug-rest> and PUG View <https://pubchem.ncbi.nlm.nih.gov/docs/pug-view> services. This package allows users to automatically access chemical and biological data from 'PubChem', including compounds, substances, assays, and various other data types. Functions are available to retrieve data in different formats, perform searches, and access detailed annotations.

Authors:Selcuk Korkmaz [aut, cre], Bilge Eren Yamasan [aut], Dincer Goksuluk [aut]

PubChemR_2.1.2.tar.gz
PubChemR_2.1.2.zip(r-4.5)PubChemR_2.1.2.zip(r-4.4)PubChemR_2.1.2.zip(r-4.3)
PubChemR_2.1.2.tgz(r-4.4-any)PubChemR_2.1.2.tgz(r-4.3-any)
PubChemR_2.1.2.tar.gz(r-4.5-noble)PubChemR_2.1.2.tar.gz(r-4.4-noble)
PubChemR_2.1.2.tgz(r-4.4-emscripten)PubChemR_2.1.2.tgz(r-4.3-emscripten)
PubChemR.pdf |PubChemR.html✨
PubChemR/json (API)

# Install 'PubChemR' in R:
install.packages('PubChemR', repos = c('https://selcukorkmaz.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/selcukorkmaz/pubchemr/issues

On CRAN:

5.70 score 1 stars 21 scripts 544 downloads 24 exports 52 dependencies

Last updated 2 months agofrom:37a41a0293. Checks:OK: 1 WARNING: 2 ERROR: 4. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 01 2024
R-4.5-winERRORNov 01 2024
R-4.5-linuxWARNINGNov 01 2024
R-4.4-winERRORNov 01 2024
R-4.4-macWARNINGNov 01 2024
R-4.3-winERRORNov 01 2024
R-4.3-macERRORNov 01 2024

Exports:AIDsCIDsdownloadget_aidsget_all_sourcesget_assaysget_cidsget_compoundsget_propertiesget_pug_restget_pug_viewget_sdfget_sidsget_substancesget_synonymsinstanceproperty_mappubChemDatarequest_argsretrievesectionsectionListSIDssynonyms

Dependencies:askpassbitopsbriocallrclicpp11crayoncurldescdiffobjdigestdplyrevaluatefansifsgenericsgluehttrjsonlitelifecyclemagickmagrittrmimeopensslpillarpkgbuildpkgconfigpkgloadpngpraiseprocessxpspurrrR6RcppRCurlrematch2RJSONIOrlangrprojrootrsvgstringistringrsystestthattibbletidyrtidyselectutf8vctrswaldowithr

Accessing and Exploring Chemical Data with PubChemR: A Guide to PUG REST Service

Selcuk Korkmaz, Bilge Eren Korkmaz, Dincer Goksuluk

Rendered fromExploring_Chemical_Data_with_PubChemR.Rmdusingknitr::rmarkdownon Nov 01 2024.

Last update: 2024-10-02
Started: 2023-12-11

Enhancing Chemical Data Access with PubChemR: A Guide to Utilizing PUG View Service

Selcuk Korkmaz, Bilge Eren Yamasan, Dincer Goksuluk

Rendered fromEnhancing_Chemical_Data_Access_with_PubChemR.Rmdusingknitr::rmarkdownon Nov 01 2024.

Last update: 2024-09-27
Started: 2023-12-11

Working with PubChemR to Access Chemical Data

Selcuk Korkmaz, Bilge Eren Yamasan, Dincer Goksuluk

Rendered fromWorking_with_PubChemR_to_Access_Chemical_Data.Rmdusingknitr::rmarkdownon Nov 01 2024.

Last update: 2024-07-12
Started: 2023-11-06

Readme and manuals

Help Manual

Help pageTopics
Assay, Compound, and Substance IdentifiersAIDs AIDs-SIDs-CIDs AIDs.PubChemInstance_AIDs CIDs CIDs.PubChemInstance_CIDs SIDs SIDs.PubChemInstance_SIDs
Download Content from PubChem and Save to a Filedownload
Retrieve Assay IDs (AIDs) from PubChemget_aids
Retrieve All Sources from PubChemget_all_sources
Retrieve Assays from PubChemget_assays
Retrieve Compound IDs (CIDs) from PubChemget_cids
Retrieve Compounds from PubChemget_compounds
Retrieve Compound Properties from PubChemget_properties property_map
Retrieve Data from PubChem PUG REST APIget_pug_rest
Retrieve PUG View Data from PubChemget_pug_view
Retrieve/Save SDF Data from PubChemget_sdf
Retrieve Substance IDs (SIDs) from PubChemget_sids
Retrieve Substances from PubChemget_substances
Retrieve Synonyms from PubChemget_synonyms
Retrieve Information for Requested Instancesinstance instance.PubChemInstanceList
Retrieve Raw Data from PUG REST ObjectpubChemData pubChemData.PugRestInstance
'PubChemInstanceList' and 'PubChemInstance' ClassesPubChemR-classes
Classes for Pug View RequestPugView-classes
Retrieve Function Inputsrequest_args
Retrieve Information from PubChem Instancesretrieve retrieve.PC_Substance retrieve.PubChemInstance retrieve.PubChemInstanceList retrieve.PugViewInstance retrieve.PugViewSection
Extract Sections from Pug View Requestsection section.PugViewInstance section.PugViewSection section.PugViewSectionList
List Available Section/SubsectionssectionList sectionList.PugViewInstance sectionList.PugViewSection sectionList.PugViewSectionList
Getter function for 'Synonyms'synonyms synonyms.PubChemInstance_Synonyms