Package: RImmPort 1.33.0

Zicheng Hu

RImmPort: RImmPort: Enabling Ready-for-analysis Immunology Research Data

The RImmPort package simplifies access to ImmPort data for analysis in the R environment. It provides a standards-based interface to the ImmPort study data that is in a proprietary format.

Authors:Ravi Shankar <[email protected]>

RImmPort_1.33.0.tar.gz
RImmPort_1.33.0.zip(r-4.5)RImmPort_1.33.0.zip(r-4.4)RImmPort_1.33.0.zip(r-4.3)
RImmPort_1.33.0.tgz(r-4.4-any)RImmPort_1.33.0.tgz(r-4.3-any)
RImmPort_1.33.0.tar.gz(r-4.5-noble)RImmPort_1.33.0.tar.gz(r-4.4-noble)
RImmPort_1.33.0.tgz(r-4.4-emscripten)RImmPort_1.33.0.tgz(r-4.3-emscripten)
RImmPort.pdf |RImmPort.html✨
RImmPort/json (API)

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

Peer review:

On BioConductor:RImmPort-1.33.0(bioc 3.20)RImmPort-1.32.0(bioc 3.19)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

bioconductor-package

20 exports 0.91 score 36 dependencies 2 mentions

Last updated 2 months agofrom:76f6d0ca08

Exports:buildNewSqliteDbEventsFindingsgetAssayDataOfStudiesgetDomainCodegetDomainDataOfStudiesgetListOfAssayTypesgetListOfDomainsgetListOfStudiesgetStudiesWithSpecificAssayDatagetStudiesWithSpecificDomainDatagetStudyInterventionsloadSerializedStudyDatamergeDomainAndSupplementalserialzeStudyDatasetImmPortDataSourceSpecialPurposeStudyTrialDesign

Dependencies:bitbit64blobcachemchronclicpp11data.tableDBIdplyrfansifastmapgenericsgluegsubfnlifecyclemagrittrmemoisepillarpkgconfigplogrplyrprotoR6Rcppreshape2rlangRSQLitesqldfstringistringrtibbletidyselectutf8vctrswithr

RImmPort: Enabling ready-for-analysis immunology research data

Ravi Shankar

Rendered fromRImmPort_Article.Rmdusingknitr::rmarkdownon Jun 30 2024.

Last update: 2018-03-30
Started: 2016-02-22

RImmPort: Quick Start Guide

Ravi Shankar

Rendered fromRImmPort_QuickStart.Rmdusingknitr::rmarkdownon Jun 30 2024.

Last update: 2018-03-30
Started: 2016-02-22

Readme and manuals

Help Manual

Help pageTopics
Adverse Events DomainAdverse Events Domain
Adverse Events Domain VariablesAE
Associated Persons Medical History Domain VariablesAPMH
Associated Persons Medical History DomainAssociated Persons Medical History Domain
buildNewSqliteDbbuildNewSqliteDb
Cellular Quantification DomainCellular Quantification Domain
Concomitant Medications Domain VariablesCM
Concomitant Medications DomainConcomitant Medications Domain
Demographics DomainDemographics Domain
Demographics Domain VariablesDM
Protocol Deviations Domain VariablesDV
Events classEvents Events-class
Exposure Domain VariablesEX
Exposure DomainExposure Domain
Findings About Domain VariablesFA
Findings About DomainFindings About Domain
Findings classFindings Findings-class
Genetics Findings DomainGenetics Findings Domain
Get specific assay data of one or more studies from the ImmPort databasegetAssayDataOfStudies
Get code of a specific domaingetDomainCode
Get specific domain data of one or more studies from the ImmPort databasegetDomainDataOfStudies
Get a list of Assay TypesgetListOfAssayTypes
Get names of all domains and their codesgetListOfDomains
Get a list of all studiesgetListOfStudies
Get a list of studies that have specific assay type datagetStudiesWithSpecificAssayData
Get a list of studies that have specific domain datagetStudiesWithSpecificDomainData
Get all data of a specific study from the ImmPort data sourcegetStudy
Interventions classInterventions Interventions-class
Laboratory Test Results DomainLaboratory Test Results Domain
Laboratory Test Results Domain VariablesLB
Load the Serialized Data of a StudyloadSerializedStudyData
Medical History DomainMedical History Domain
Merge the Domain dataframe and Supplemental dataframe (long form)mergeDomainAndSupplemental
Medical History Domain VariablesMH
Nucleic Acid Quantification DomainNucleic Acid Quantification Domain
Physical Examination Domain VariablesPE
Genetics Findings Domain VariablesPF
Physical Examination DomainPhysical Examination Domain
Protein Quantification DomainProtein Quantification Domain
Protocol Deviations DomainProtocol Deviations Domain
Questionnaires Domain VariablesQS
Questionnaires DomainQuestionnaires Domain
RImmPort: Enabling ready-for-analysis immunology research dataRImmPort-package RImmPort
Serialize the Study DataserialzeStudyData
Set ImmPort data ourcesetImmPortDataSource
Skin Response DomainSkin Response Domain
Special Purpose classSpecialPurpose SpecialPurpose-class
Skin Response Domain VariablesSR
Study classStudy Study-class
Substance Use Domain VariablesSU
Subject Visits DomainSubject Visits Domain
Substance Use DomainSubstance Use Domain
Supplemental VariablesSUPP
Protocol Deviations Domain Supplemental VariablesSUPPDV
Findings About Domain Supplemental VariablesSUPPFA
Laboratory Test Results Domain Supplemental VariablesSUPPLB
Medical History Domain Supplemental VariablesSUPPMH
Physical Examination Domain Supplemental VariablesSUPPPE
Genetics Findings Domain Supplemental VariablesSUPPPF
Vital Signs Domain Supplemental VariablesSUPPVS
Protein Quantification Domain Supplemental VariablesSUPPZA
Cellular Quantification Domain Supplemental VariablesSUPPZB
Nucleic Acid Quantification Domain Supplemental VariablesSUPPZC
Titer Assay Results Domain Supplemental VariablesSUPPZD
Subject Visits Domain VariablesSV
Trial Arms Domain VariablesTA
Trial Inclusion Exclusion Criteria Domain VariablesTI
Titer Assay Results DomainTiter Assay Results Domain
Trial Arms DomainTrial Arms Domain
Trial Inclusion Exclusion Criteria DomainTrial Inclusion Exclusion Criteria Domain
Trial Summary DomainTrial Summary Domain
Trial Visits DomainTrial Visits Domain
Trial Design classTrialDesign TrialDesign-class
Trial Summary Domain VariablesTS
Trial Visits Domain VariablesTV
Vital Signs DomainVital Signs Domain
Vital Signs Domain VariablesVS
Protein Quantification Domain VariablesZA
Cellular Quantification Domain VariablesZB
Nucleic Acid Quantification Domain VariablesZC
Titer Assay Results Domain VariablesZD