Hello,

I've been running into some issues in computing the spillover matrix using
flowCore. I've searched the archives, and there seems to be someone else
from 2 years ago who had this problem; however, I tried the suggested fixes
to no avail, and I'm not sure if the original poster ever resolved the
problem.

Here is a brief description of my dataset:

I have a flowSet with 10 experiments, the first of which is my unstained
control fcs file. Experiments 2-10 correspond to FITC-A PE-A PE-Cy7-A
V450-A APC-A Alexa 700-A QDot 655-A APC-Cy7-A Pac Orange-A

The following are the column names of each flowFrame:
  FSC-A FSC-H SSC-A SSC-H FITC-A PE-A PE-Cy7-A V450-A APC-A Alexa 700-A
QDot 655-A APC-Cy7-A Pac Orange-A Time

I call the spillover function as follows:

namepatt <- "FITC-A|PE-A|PE-Cy7-A|V450-A|APC-A|Alexa 700-A|QDot
655-A|APC-Cy7-A|Pac Orange-A"
comp.mat <- spillover(compdat[,c(1,3,5:13)],unstained =
sampleNames(compdat)[1], patt = namepatt,fsc = "FSC-A", ssc =
"SSC-A",method = "median",useNormFilt = TRUE)

Notice the useNormFilt = TRUE. I have set it to FALSE and also get the same
error message: Error in .local(x, ...) : subscript out of bounds

Does anyone know what is going on here? Help is much appreciated

Thanks,
John

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