IdMappingRetrieval: ID Mapping Data Retrieval

Data retrieval for identifier mapping performance analysis

AuthorAlex Lisovich, Roger Day
Date of publicationNone
MaintainerAlex Lisovich <alex.lisovich@gmail.com>, Roger Day <day01@pitt.edu>
LicenseGPL-2
Version1.22.0

View on Bioconductor

Man pages

addServices.ServiceManager: Add services to the ServiceManager object

Annotation: The Annotation class

AnnotationAffx: The AnnotationAffx class

AnnotationEnsembl: The AnnotationEnsembl class

AnnotationEnsemblCsv: The AnnotationEnsemblCsv class

AnnotationEnvision: The AnnotationEnvision class

AnnotationNetAffx: The AnnotationNetAffx class

as.IdMap: Perform the transformation of the UniquePairs object into the...

as.UniquePairs: Create a UniquePairs object by converting a single IdMap or a...

filesExist.AnnotationNetAffx: Check if the AnnotationNetAffx contains the reference to an...

Generic.Roo: Generic R.00 object methods

getColumns.Annotation: Extract ID match pairs from the data frame obtained from the...

getColumns.AnnotationAffx: Extract ID match pairs from the data frame obtained from the...

getColumns.AnnotationEnsembl: Extract ID match pairs from the data frame obtained from the...

getColumns.AnnotationEnsemblCsv: Extract ID match pairs from the data frame obtained from the...

getColumns.AnnotationEnvision: Extract ID match pairs from the data frame obtained from the...

getDataFrame.Annotation: Get the entire data set available from a particular service...

getDataFrameList.ServiceManager: Collect raw data data from various online query systems...

getFolderName.Annotation: Get caching folder name for a given Annotation object

getIdMap.Annotation: Get an IdMap object using the data retrieved by a particular...

getIdMapList.ServiceManager: Collect ID mapping data from various online query systems...

getServiceRoot.Annotation: Get a root directory for a particular annotation object

getServices.ServiceManager: Get list of annotation services encapsulated within the...

IdMappingAnnotationData.root: Annotation data root directory

IdMappingRetrieval-package: Id Mapping Retrieval.

readDF.Annotation: Retrieve the annotation data frame from the service data...

readDF.AnnotationAffx: Retrieve the annotation data frame from the service data...

readDF.AnnotationEnsembl: Retrieve the annotation data frame from the Ensembl online...

readDF.AnnotationEnsemblCsv: Retrieve the annotation data frame from the Ensembl csv query...

readDF.AnnotationEnvision: Retrieve the annotation data frame using Envision online...

readDF.AnnotationNetAffx: Retrieve the annotation data frame from the service data...

ServiceManager: The ServiceManager class

setOptions.Annotation: Set the parameters for an annotation object

setServices.ServiceManager: Set the list of services for a ServiceManager object

subsetByColumn: Extract subset of rows from a data frame or a list of data...

swapKeys: Swap the primary and secondary key columns

Functions

addServices Man page
addServices.ServiceManager Man page
addServices.ServiceManager Man page
addServices,ServiceManager-method Man page
Annotation Man page
AnnotationAffx Man page
AnnotationAffx.getColumns Man page
AnnotationAffx.readDF Man page
AnnotationEnsembl Man page
AnnotationEnsemblCsv Man page
AnnotationEnsemblCsv.getColumns Man page
AnnotationEnsemblCsv.readDF Man page
AnnotationEnsembl.getColumns Man page
AnnotationEnsembl.readDF Man page
AnnotationEnvision Man page
AnnotationEnvision.getColumns Man page
AnnotationEnvision.readDF Man page
Annotation.getColumns Man page
Annotation.getDataFrame Man page
Annotation.getFolderName Man page
Annotation.getIdMap Man page
Annotation.getServiceRoot Man page
AnnotationNetAffx Man page
AnnotationNetAffx.filesExist Man page
AnnotationNetAffx.readDF Man page
Annotation.readDF Man page
Annotation.setOptions Man page
as.IdMap Man page
as.UniquePairs Man page
createSubmission Man page
filesExist Man page
filesExist.AnnotationNetAffx Man page
filesExist.AnnotationNetAffx Man page
filesExist,AnnotationNetAffx-method Man page
Generic R.00 object methods Man page
getArrayType Man page
getArrayTypes Man page
getColumns Man page
getColumns1 Man page
getColumns2 Man page
getColumns.Annotation Man page
getColumns.Annotation Man page
getColumns.AnnotationAffx Man page
getColumns.AnnotationAffx Man page
getColumns,AnnotationAffx-method Man page
getColumns.AnnotationEnsembl Man page
getColumns.AnnotationEnsembl Man page
getColumns.AnnotationEnsemblCsv Man page
getColumns.AnnotationEnsemblCsv Man page
getColumns,AnnotationEnsemblCsv-method Man page
getColumns,AnnotationEnsembl-method Man page
getColumns.AnnotationEnvision Man page
getColumns.AnnotationEnvision Man page
getColumns,AnnotationEnvision-method Man page
getColumns,Annotation-method Man page
getCredentials Man page
getDataFrame Man page
getDataFrame.Annotation Man page
getDataFrame.Annotation Man page
getDataFrame,Annotation-method Man page
getDataFrameList Man page
getDataFrameList.ServiceManager Man page
getDataFrameList.ServiceManager Man page
getDataFrameList,ServiceManager-method Man page
getDefaultServices Man page
getFolderName Man page
getFolderName.Annotation Man page
getFolderName.Annotation Man page
getFolderName,Annotation-method Man page
getIdMap Man page
getIdMap.Annotation Man page
getIdMap.Annotation Man page
getIdMap,Annotation-method Man page
getIdMapList Man page
getIdMapList.ServiceManager Man page
getIdMapList.ServiceManager Man page
getIdMapList,ServiceManager-method Man page
getProbesetList Man page
getRoot Man page
getServiceRoot Man page
getServiceRoot.Annotation Man page
getServiceRoot.Annotation Man page
getServiceRoot,Annotation-method Man page
getServices Man page
getServices.ServiceManager Man page
getServices.ServiceManager Man page
getServices,ServiceManager-method Man page
IdMappingAnnotationData.root Man page
IdMappingRetrieval Man page
IdMappingRetrieval-package Man page
init Man page
readDF Man page
readDF.Annotation Man page
readDF.Annotation Man page
readDF.AnnotationAffx Man page
readDF.AnnotationAffx Man page
readDF,AnnotationAffx-method Man page
readDF.AnnotationEnsembl Man page
readDF.AnnotationEnsembl Man page
readDF.AnnotationEnsemblCsv Man page
readDF.AnnotationEnsemblCsv Man page
readDF,AnnotationEnsemblCsv-method Man page
readDF,AnnotationEnsembl-method Man page
readDF.AnnotationEnvision Man page
readDF.AnnotationEnvision Man page
readDF,AnnotationEnvision-method Man page
readDF,Annotation-method Man page
readDF.AnnotationNetAffx Man page
readDF.AnnotationNetAffx Man page
readDF,AnnotationNetAffx-method Man page
ServiceManager Man page
ServiceManager.addServices Man page
ServiceManager.getDataFrameList Man page
ServiceManager.getIdMapList Man page
ServiceManager.getServices Man page
ServiceManager.setServices Man page
setCredentials Man page
setOptions Man page
setOptions.Annotation Man page
setOptions.Annotation Man page
setOptions,Annotation-method Man page
setServices Man page
setServices.ServiceManager Man page
setServices.ServiceManager Man page
setServices,ServiceManager-method Man page
subsetByColumn Man page
swapKeys Man page

Files

IdMappingRetrieval/.BBSoptions
IdMappingRetrieval/DESCRIPTION
IdMappingRetrieval/IdMappingRetrieval.Rproj
IdMappingRetrieval/NAMESPACE
IdMappingRetrieval/R
IdMappingRetrieval/R/IdMappingRetrieval-package.R IdMappingRetrieval/R/annotation.R IdMappingRetrieval/R/annotationAffx.R IdMappingRetrieval/R/annotationDataRoot.R IdMappingRetrieval/R/annotationEnsembl.R IdMappingRetrieval/R/annotationEnsemblCsv.R IdMappingRetrieval/R/annotationEnvision.R IdMappingRetrieval/R/annotationNetAffx.R IdMappingRetrieval/R/compatibility.R IdMappingRetrieval/R/serviceManager.R IdMappingRetrieval/R/zzz.R
IdMappingRetrieval/README.md
IdMappingRetrieval/build
IdMappingRetrieval/build/vignette.rds
IdMappingRetrieval/demo
IdMappingRetrieval/demo/00Index
IdMappingRetrieval/demo/DataCollection.R
IdMappingRetrieval/inst
IdMappingRetrieval/inst/doc
IdMappingRetrieval/inst/doc/IdMappingRetrieval.R
IdMappingRetrieval/inst/doc/IdMappingRetrieval.Rnw
IdMappingRetrieval/inst/doc/IdMappingRetrieval.pdf
IdMappingRetrieval/man
IdMappingRetrieval/man/Annotation.Rd IdMappingRetrieval/man/AnnotationAffx.Rd IdMappingRetrieval/man/AnnotationEnsembl.Rd IdMappingRetrieval/man/AnnotationEnsemblCsv.Rd IdMappingRetrieval/man/AnnotationEnvision.Rd IdMappingRetrieval/man/AnnotationNetAffx.Rd IdMappingRetrieval/man/Generic.Roo.Rd IdMappingRetrieval/man/IdMappingAnnotationData.root.Rd IdMappingRetrieval/man/IdMappingRetrieval-package.Rd IdMappingRetrieval/man/ServiceManager.Rd IdMappingRetrieval/man/addServices.ServiceManager.Rd IdMappingRetrieval/man/as.IdMap.Rd IdMappingRetrieval/man/as.UniquePairs.Rd IdMappingRetrieval/man/filesExist.AnnotationNetAffx.Rd IdMappingRetrieval/man/getColumns.Annotation.Rd IdMappingRetrieval/man/getColumns.AnnotationAffx.Rd IdMappingRetrieval/man/getColumns.AnnotationEnsembl.Rd IdMappingRetrieval/man/getColumns.AnnotationEnsemblCsv.Rd IdMappingRetrieval/man/getColumns.AnnotationEnvision.Rd IdMappingRetrieval/man/getDataFrame.Annotation.Rd IdMappingRetrieval/man/getDataFrameList.ServiceManager.Rd IdMappingRetrieval/man/getFolderName.Annotation.Rd IdMappingRetrieval/man/getIdMap.Annotation.Rd IdMappingRetrieval/man/getIdMapList.ServiceManager.Rd IdMappingRetrieval/man/getServiceRoot.Annotation.Rd IdMappingRetrieval/man/getServices.ServiceManager.Rd IdMappingRetrieval/man/readDF.Annotation.Rd IdMappingRetrieval/man/readDF.AnnotationAffx.Rd IdMappingRetrieval/man/readDF.AnnotationEnsembl.Rd IdMappingRetrieval/man/readDF.AnnotationEnsemblCsv.Rd IdMappingRetrieval/man/readDF.AnnotationEnvision.Rd IdMappingRetrieval/man/readDF.AnnotationNetAffx.Rd IdMappingRetrieval/man/setOptions.Annotation.Rd IdMappingRetrieval/man/setServices.ServiceManager.Rd IdMappingRetrieval/man/subsetByColumn.Rd IdMappingRetrieval/man/swapKeys.Rd
IdMappingRetrieval/vignettes
IdMappingRetrieval/vignettes/IdMappingRetrieval.Rnw

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