[BioC] Empty featureData slot in beadsummary IlluminaExpressionSet object
Alice.Johnstone at esr.cri.nz
Tue Jan 15 02:33:23 CET 2008
The IlluminaExpressionSet object that I have created from beadsummary
data does not have the ProbeIDs attached as the rownames.
The featureData slot is empty, and hence I just have a sequential
rownumber as the identifier instead.
I tried an upgrade to the dev version but the probeIDs were also not
How can I fix this?
Command and session info below,
ExpressionSetIllumina (storageMode: list)
assayData: 22517 features, 15 samples
element names: exprs, se.exprs, NoBeads, Detection, Narrays,
rowNames: 1, 2, ..., 15 (15 total)
varLabels and varMetadata description:
fvarLabels and fvarMetadata description: none
experimentData: use 'experimentData(object)'
Available Slots: exprs se.exprs Detection NoBeads controlType
featureNames: 1, 2, ..., 6, 7
sampleNames: X1814671016_A.AVG_Signal, X1814671016_B.AVG_Signal, ...,
R version 2.6.1 (2007-11-26)
attached base packages:
 tools stats graphics grDevices utils datasets methods
other attached packages:
 illuminaRatv1_1.4.0 beadarray_1.6.0 affy_1.16.0
 geneplotter_1.16.0 lattice_0.17-2 annotate_1.16.1
 RSQLite_0.6-4 DBI_0.2-4 Biobase_1.16.2
loaded via a namespace (and not attached):
 grid_2.6.1 KernSmooth_2.22-21 RColorBrewer_1.0-2
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