Description Usage Arguments Details Value Author(s) See Also Examples
Reading Illumina methylation array data from GEO.
1 2 3 |
GSE |
The GSE ID of the dataset to be downloaded from GEO. |
path |
If data already downloaded, the path with soft files. Either |
array |
Array name. |
annotation |
The feature annotation to be used. This includes the location of features thus depends on genome build. |
what |
Are |
mergeManifest |
Should the Manifest be merged to the final object. |
i |
If the GEO download results in more than one dataset, it pickes entry |
This function downloads data from GEO using
getGEO
from the GEOquery package. It then
returns a GenomicRatioSet object. Note that the rs probes
(used for genotyping) are dropped.
A GenomicRatioSet object.
Tim Triche Jr. and Rafael A. Irizarryrafa@jimmy.harvard.edu.
If the data is already in memor you can use
makeGenomicRatioSetFromMatrix
1 2 3 4 | ## Not run:
mset=getGenomicRatioSetFromGEO("GSE42752")
## End(Not run)
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