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Straubhaar, Juerg
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300
@straubhaar-juerg-391
Last seen 10.3 years ago
getAllQCProbes("ygs98cdf") produces the following vector of yeast
control probes on the YG_S98 Affymetrix microarray chip:
[1] "AFFX-YFL039C3_at" "AFFX-YFL039CM_at" "AFFX-YFL039C5_at" "AFFX-
YER022w3_at"
[5] "AFFX-YER022wM_at" "AFFX-YER022w5_at" "AFFX-YER148w3_at" "AFFX-
YER148wM_a"
[9] "AFFX-YER148w5_at"
The 8th component of this vector is missing a 't' at the end. When I
use simpleaffy with gc.affy(AffyBatch) I run into an error:
Error in FUN(X[[8]], ...) : subscript out of bounds
I traced this error to the eighth component of the qc vector above and
the error occurs in the step:
qc.probe.vals <- rbind(c(), (sapply(qc.probenames, function(y) {
x[y, ]
In debug mode when I edit qc.probenames I don't get an error.
Juerg Straubhaar
Umass Med
Worcester