[BioC] spillover method in flowCore package
fredgca at hotmail.com
Sat Mar 27 22:25:02 CET 2010
Thanks for helping me! And sorry for sending the email in HTML for the list.
> Your flowSet appears to have 1 unstained sample and 5 single stained controls for APC, PercPCy5.5, FITC, PeCy7 and PE . The column names of fs have>
> FITC-A, PE-A, PerCP-A, PE, Cy7-A and APC-A ( 6 channels).
>Can you try to call spillover after removing the columns corresponding to Time and the missing channel for which you do not have single stained samples
> for from the flowSet ?
In fact, I just have 5 stained channels. I my previous email "PE Cy7-A" looked like two dyes instead of one.
 "FSC-H" "SSC-A" "FITC-A" "PE-A" "PerCP-A" "PE Cy7-A" "APC-A"
When I use the following command, the Time column is eliminated, as we can see in the output.
A flowSet with 6 experiments.
FSC-H SSC-A FITC-A PE-A PerCP-A PE Cy7-A APC-A
However, when I use it in the spillover method, I still having the same error.
> comp.mat <- spillover(fs[,1:7], unstained=1, fsc = "FSC-H", ssc= "SSC-A")
Error in .local(x, ...) : subscript out of bounds
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