I'm using the flowCore packages to analyze cytometry data, and I am trying to understand all the parameters stored in the FCS file. I've figured out most of the elements, but despite a thorough search I haven't been able to find documentation on some of the parameters.
For each channel, there are 9 associated parameters. Here's P1 and its associated values from one of my files :
I've figured out the following from various sources (notably the FCS data standards, given here) or from the fields themselves:
$PnNShort name for parameter n.
$PnRRange for parameter number n.
$PnBNumber of bits reserved for parameter number n.
$PnEAmplification type for parameter n.
$PnVDetector voltage for parameter n.
$PnGAmplifier gain used for acquisition of parameter n.
$PnDISPLAYthe transformation to apply when displaying the data (e.g. LIN, LOG)
However, these 2 don't appear in the file standard description, and flowCore does not have documentation on the parameters either.
$PnBS set at -1, 0, 48, 57, 54, 52 or 25 for various channels in my data, while
$PnMS always seems to be at 0.
Does someone know what it is, or where to look for a definition? If that helps, my FCS files were generated through BD FACSDiva Software Version 9.0.1.