Man pages for seandavi/GEOquery
Get data from NCBI Gene Expression Omnibus (GEO)
| browseGEOAccession | Open the GEO page for a given accession |
| browseWebsiteRNASeqSearch | Browse GEO search website for RNA-seq datasets |
| coercion | Convert a GDS data structure to a BioConductor data structure |
| extractFilenameFromDownloadURL | Extract filename from a GEO download URL |
| GDS-class | Class 'GDS' |
| GEOData-accessors | Generic functions for GEOquery |
| GEOData-class | Class 'GEOData' |
| GEODataTable-class | Class 'GEODataTable' |
| 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 |
| getGEOSuppFiles | Get Supplemental Files from GEO |
| getGSEDataTables | Get GSE data tables from GEO into R data structures. |
| getGSEDownloadPageURLs | get all download links from a GEO accession |
| getRNAQuantAnnotationURL | Get the RNA-seq quantification annotation link |
| getRNAQuantRawCountsURL | Get the link to the raw counts file from GEO |
| getRNASeqData | Get GEO RNA-seq quantifications as a SummarizedExperiment... |
| getRNASeqQuantGenomeInfo | Extract genome build and species for GEO RNA-seq... |
| getRNASeqQuantResults | Get RNA-seq quantification and annotation from GEO |
| GPL-class | Class 'GPL' |
| GSE-class | Class 'GSE' |
| GSM-class | Class 'GSM' |
| hasRNASeqQuantifications | Does a GEO accession have RNA-seq quantifications? |
| parseGEO | Parse GEO text |
| parseGSEMatrix | Parse a GSE mstrix file |
| readRNAQuantAnnotation | Read RNA-seq quantification annotation from GEO |
| readRNAQuantRawCounts | Read raw counts from GEO |
| searchFieldsGEO | Provide a list of possible search fields for GEO search |
| searchGEO | Search GEO database |
| urlExtractRNASeqQuantGenomeInfo | Extract genome build and species from a GEO download URL |
| urlForAccession | The URL for a GEO accession |
