IdMappingRetrieval: ID Mapping Data Retrieval

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Data retrieval for identifier mapping performance analysis

Author
Alex Lisovich, Roger Day
Date of publication
None
Maintainer
Alex Lisovich <alex.lisovich@gmail.com>, Roger Day <day01@pitt.edu>
License
GPL-2
Version
1.22.0

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

Files in this package

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