From: Eric Martz (emartz@microbio.umass.edu)
Date: Fri Feb 10 1995 - 17:18:13 EST
A few ideas re: your ACQCYTE listmode files. All software mentioned below is free (except IDL). Hopefully someone else will add some ideas because I don't have a solution. If my program MFI doesn't read the Phoenix ACQCYTE files, I'll be happy to make it do so if you provide me with a sample file. It would generate ASCII listmode or histogram files (not FCS) suitable for spreadsheets. However MFI does not do cell cycle analysis, so may be of no help. Although Joe Trotter's WinMDI does not do cell cycle analysis, I believe it does export listmode or histograms to ASCII. That may be better than MFI if you need to do doublet discrimination gating, since MFI offers only rectangular gates (WinMDI has polygonal gates). Also, it would allow you to get areas and intensities for manually marked segments of histograms, which might suffice for rough purposes. Joe Trotter also offers a program TXT2FCS which will convert an ASCII file to an FCS file. You could see whether mcycle or cytocell would like the result (ACQCYTE -MFI-> ASCII -TXT2FCS-> FCS -> mcycle/cytocell?). Robb Habbersett's IDLYK does a simple cell cycle analysis. It runs only on a unix machine with a license for the IDL interpreter (>$1,000). However, if you contact RSI (the purveyors of IDL) they will tell you who at U Hawaii already have IDL licenses. I was able to find IDL on a Sun here in Computer Sci, and they were willing to give me a free account. However, IDLYK didn't run right away and I haven't spent the time to work out the installation glitches. As far as I have been able to find out, there is no (totally) free software which does cell cycle/DNA analysis (yet). As far as I have been able to ascertain, the NIH LAP program does not do cell cycle analysis. ftp/sources: MFI: marlin.bio.umass.edu: /pub/flowcyt/mfi. WinMDI, TXT2FCS (included in zipped WinMDI file): flosun.salk.edu: /pub/pc. Habbersett: robb@beatrice.lanl.gov. In message Thu, 09 Feb 1995 16:11:22 -1000, Wendy Jones <wjones@uhunix.uhcc.Hawaii.Edu> writes: > I'm having a file compatability problem that hopefully, someone out there > in the net can help me with. > > A short time ago I had the opportunity to train in a flow lab on the > mainland (I'm in Hawaii). During my training I ran plant nuclei stained > with PI for DNA content analysis. The instrument was an EPICS, and > histograms were generated using ACQCYTE software (Pheonix) on a PC. The > files were saved in lis mode, not as histograms. NOw that I'm back home > I'd like to do something with those files. Hence my problem. The > available software here is mcycle or cytocell, neither of which appear > to like my files. > Any suggestions? (besides start over) > The files are in FCS 1.0 format (ortho not MADS, if thats of help) > the parameters were LFL,FL and FS. > > Thanks, > Wendy > /*- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Eric Martz, Professor of Immunology emartz@microbio.umass.edu Dept Microbiology Voice: 413-545-2325 FAX: 413-545-1578 Morrill IVN 203, Box 35720, Univ Massachusetts, Amherst MA 01003-5720 - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -*/
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