From: A.J. Rossini (rossini@blindglobe.net)
Date: Fri Dec 19 2003 - 22:39:46 EST
For people looking for free software, and don't mind a bit of work
(suffering? bwah-ha-ha...), we've got another not-completely broken
alpha release of rflowcyt, a package which is built on top of R
(http://www.r-project.org/), and released in the same vein as the
Bioconductor suite for genomic analysis (http://www.bioconductor.org/)
which I am involved with.
It has the following severe weak points -- the user interface for
gating is awful, to put it mildly. It's built on a command-line
interface.
It has the following strong points -- if you don't mind a bit of work,
R can handle most statistical analyses that people want to do. There
is some documentation for using it, but it's not quite complete, but
we are working on it. However, it is completely cross-platform (R
runs on Linux/Unix, Microsoft Windows, and Mac OSX.
On the other hand, the following R code will write out an excel file
of the list-mode data for plotting:
library(rflowcyt)
my.file <- read.FCS("/path/to/my/FCS/file.fcs")
write.table(my.file$data,file="file.csv",sep=",",col.names=NA)
If interested, it can be obtained from
http://www.analytics.washington.edu/~rossini/rflowcyt/
You will have to install R as well as figure out the R package
system. I havn't built binary packages for Windows yet, so it's a bit
of a pain to install (but I should be doing that by the first week of
January).
best,
-tony
"Jayaraman, Sundararajan" <SJayaram@med.miami.edu> writes:
> Unfortunately this is not Mac compatible!
>
> Sundararajan Jayaraman, Ph.D.
> Research Assistant Professor
> Diabetes Research Institute
> University of Miami School of Medicine
> 1450 NW 10th Avenue (R-134)
> Miami, FL 33136
> Tel. (305) 243-3700
> Fax (305) 243-4404
> E-mail: sjayaram@med.miami.edu
>
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>> ----------
>> From: MailingList/general/Biocytex@biocytex.fr
>> Sent: Friday, December 12, 2003 1:48 PM
>> To: Cytometry Mailing List
>> Subject: Réf. : Free software?
>>
>> You should have a look to a free demo software on www.denovosoftware.com.
>>
>> Philippe Poncelet, PhD
>> BioCytex
>> 140, Chemin de l'Armée d'Afrique
>> 13010 Marseille France
>> Tel: +33 (0) 4 96 12 20 40
>> Fax: +33 (0) 4 91 47 24 71
>> www.biocytex.fr
>>
>>
>>
>>
>>
>> Dorte Christiansen <dorte.christiansen@nss.nhn.no> le 11/12/2003 14:36:31
>>
>> Pour : Cytometry Mailing List <cytometry@flowcyt.cyto.purdue.edu>
>> cc :
>>
>> Objet : Free software?
>>
>>
>> Hi!
>>
>> As I understand there is some free software for flowdata analysis somewhere
>> on the Web. With my limited "web-skills" I haven`t been able to find a site
>> yet. Could someone please direct me to any of these sites?
>>
>> What is the general opinion of using these free softwares?
>> Are they safe to use considering the security for my PC?
>>
>> Regards
>>
>> Dorte Christiansen
>> Researchlab
>> Nordland Hospital
>> Bodoe
>> Norway
>>
>>
>>
>>
>>
>>
>>
>
>
--
rossini@u.washington.edu http://www.analytics.washington.edu/
Biomedical and Health Informatics University of Washington
Biostatistics, SCHARP/HVTN Fred Hutchinson Cancer Research Center
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