FlowCAP 2 data

[Noah Zimmerman]

Greetings,

I noticed that the data for the FlowCAP-2 challenges are available as either raw FCS files or pre-transformed and pre-compensated CSV files. I looked in the header of several of the data files for challenge #1 and didn't find a spillover matrix. Will you provide the appropriate compensation matrix(ces) so that we can compensate the FCS files ourselves? For those people using the transformed/compensated CSV files, can you provide details on what transformations you used (and any parameters you set for those transformations)?

Thanks!
Noah Zimmerman

[Nima Aghaeepour]

Hi Noah,

Re. compensation:

Thanks for brining this to our attention. I'll contact the lab that has produced the data to get the compensation information and will get back to you.

Re. transformation:

We have used an R package that has Wayne Moore's implementation of Logicle (W=0.5, M=4.5, A=0, bins=0)

Cheers,

Nima.

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[Nima Aghaeepour]

Dear FlowCAP2 participants,

We fixed two problems:

-The CSV files for HEUvsUE are now compensated correctly. You can redownload the files or download the spillover matrices from here:

http://www.terryfoxlab.ca/flowsite/FlowCAP2/download/HEUvsUE/Compensation.zip

-Some of the CSV files for the HVTN challenge were problematic. The files are fixed in the version available online.

Cheers,
Nima.