# Get data from NCBI Gene Expression Omnibus (GEO)

## Documentation for package ‘GEOquery’ version 2.81.28

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

Accession | Accessors for GEOquery objects
Accession-method | Class 'GEOData'
Accession-method | Class 'GEODataTable'
as_SummarizedExperiment | Coerce a GEOquery ExpressionSet to a SummarizedExperiment
browseGEOAccession | Open the GEO page for a given accession
browseWebsiteRNASeqSearch | Browse GEO search website for RNA-seq datasets
clearGEOCache | Clear the GEOquery download cache
coercion | Convert a GDS data structure to a BioConductor data structure
Columns | Accessors for GEOquery objects
Columns-method | Class 'GEOData'
Columns-method | Class 'GEODataTable'
dataTable | Accessors for GEOquery objects
dataTable-method | Class 'GEOData'
dataTable-method | Class 'GEODataTable'
GDS-class | Class 'GDS'
GDS2eSet | Convert a GDS data structure to a BioConductor data structure
GDS2MA | Convert a GDS data structure to a BioConductor data structure
geoCache | GEOquery download cache
GEOData-accessors | Accessors for GEOquery objects
GEOData-class | Class 'GEOData'
GEODataTable-class | Class 'GEODataTable'
geoSingleCellManifest | Inventory the single-cell supplementary files of a GEO Series or Sample
geoSingleCellUnits | Group a single-cell manifest into loadable units
getDirListing | get a directory listing from NCBI GEO
getGEO | Get a GEO object from NCBI or file
getGEOfile | Download a file from GEO soft file to the local machine
getGEOSeriesFileListing | GSE Supplemental file listing
getGEOSingleCell | Download and read the single-cell data of a GEO Series or Sample
getGEOSuppFiles | Get Supplemental Files from GEO
getGEOSuppFileURL | Get GEO supplemental file URL for a given GEO accession
getGSEDataTables | Get GSE data tables from GEO into R data structures.
getRNASeqData | Get GEO RNA-seq quantifications as a SummarizedExperiment object
getRNASeqQuantGenomeInfo | Extract genome build and species for GEO RNA-seq quantification
GPL | Class 'GPL'
GPL-class | Class 'GPL'
GPL-method | Class 'GPL'
GPLList | Accessors for GEOquery objects
GPLList-method | Class 'GSE'
GSE-class | Class 'GSE'
GSM-class | Class 'GSM'
GSMList | Accessors for GEOquery objects
GSMList-method | Class 'GSE'
hasRNASeqQuantifications | Does a GEO accession have RNA-seq quantifications?
Meta | Accessors for GEOquery objects
Meta-method | Class 'GEOData'
Meta-method | Class 'GEODataTable'
Meta-method | Class 'GSE'
parseGDS | Parse GEO text
parseGEO | Parse GEO text
parseGPL | Parse GEO text
parseGSE | Parse GEO text
parseGSM | Parse GEO text
readGEOSingleCell | Read a single-cell file (or 10x triplet) into a SingleCellExperiment
searchFieldsGEO | Provide a list of possible search fields for GEO search
searchGEO | Search GEO database
show-method | Class 'GEOData'
show-method | Class 'GEODataTable'
Table | Accessors for GEOquery objects
Table-method | Class 'GEOData'
Table-method | Class 'GEODataTable'
urlForAccession | The URL for a GEO accession