$`Compensation Controls_FITC Stained Control_013.fcs`įITC-A PE-A PerCP-Cy55-A PE-Cy7-A APC-A APC-H7-A BV421-A #Now I re-order the fcs files in my flowSet "deletedChanells" to match the column names in deletedChanells after which I assign it to a new FlowSet variable “compflowSetSpill” > compflowSetSpill = deletedChanells > deletedChanells= compflowset3įITC-A PE-A PerCP-Cy55-A PE-Cy7-A APC-A APC-H7-A BV421-A Aqua Amine-A FSC-A SSC-A #Deleting unnecessary/unused channels (In other words, I’m keeping channels that corresponds to single-stained comp files in my experiment such as FITC, PE etc.) #Displaying column names in order to determine the arrangement of parameters/antibodies "Compensation Controls_PerCP-Cy55 Stained Control_015.fcs" "Compensation Controls_PE Stained Control_014.fcs" "Compensation Controls_PE-Cy7 Stained Control_016.fcs" "Compensation Controls_FITC Stained Control_013.fcs" "Compensation Controls_BV421 Stained Control_019.fcs" "Compensation Controls_Aqua Amine Stained Control_020.fcs" "Compensation Controls_APC Stained Control_017.fcs" "Compensation Controls_APC-H7 Stained Control_018.fcs"
#My flowSet namely “compflowset3” contains 8 single-stained compensation files and 1 unstained sample In addition, Kindly find below the Comp Matrix from FlowJo. Perhaps, my approach was wrong but I have attached the codes for peer-review. Strangely, I compared this spillover matrix from R with that of FlowJo Compensation Matrix and found that they were dissimilar. I used the spillover() function in flowCore to generate a spillover matrix with a bunch of single-stained.
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