Description Usage Arguments Value Examples
View source: R/getDataObject.R
Returns an R object with the data for the requested vector, and annotations for samples, genome, and diseases.
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theGeneList |
A vector of gene symbol names as found in the getNames_ function for this data type. |
theZipFile |
Default: For DQS Servers. If you are on a server where the GENE_REPORT directory is on a different path, you can pass in a value to override the default of "/geneSurveyData/GeneSurvey.zip". |
theRemoveDupFlag |
Default: FALSE. Remove the duplicate barcodes from the same control samples used in different diseases. |
theVerboseFlag |
Default: FALSE. TRUE means write all output, which can be very verbose. |
theRDataFile |
Default: NULL. If non null, uses this value as a full path, including filename, to write a file with the given object. |
theListOnlyFlag |
Default: FALSE. If TRUE, save the RData file as a list with elements matching the object slots, so it can be shared with people who do not have the package. |
theUseDeltaFlag |
Default: FALSE. A flag indicating to use the differences in value between tumor and normal samples. |
The return value is an object. The following functions work to pull data out of the object.
get.Data |
get.Data |
get.GenomeAnnotations |
get.GenomeAnnotations |
get.SampleAnnotations |
get.SampleAnnotations |
get.TissueAnnotations |
get.TissueAnnotations |
1 | #See examples in tests directory in the install.
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