Question: how to read FCS3.1 files?
4.1 years ago by
Jiang, Mike • 1.1k
Jiang, Mike • 1.1k wrote:
FCS3.1 is supported by the latest flowCore (1.30.7) from bioconductor release 2.14 (http://www.bioconductor.org/packages/release/bioc/html/flowCore.html) Mike On 07/07/2014 11:40 AM, mdzunkov at bidmc.harvard.edu wrote: > Dear Dr. Jiang! > I am writing you as you are the maintainer of FlowCore and FlowViz R packages. > I would appreciate your help with my problem: > > I changed the FACS machine, now I am using Avalon S3 from BioRad and the software associated to this machine saves the .fcs files in FCS3.1 version only. This is a big problem for me, as my R script is already written for older version FCS3.0 or .lmd files which I was using before. Now I don't know how to load these files in FCS3.1 version. Do you have any idea? > > > This is how my script starts: > >> library("flowCore") >> library("flowViz") >> PATH<-"." >> PATTERN<-".fcs" >> ALTNAM<-TRUE >> TRANS<-FALSE >> fs.fast<-read.flowSet(path=PATH, alter.names=ALTNAM, transformation=TRANS, pattern=PATTERN) > Error in readFCSheader(con) : > This does not seem to be a valid FCS2.0 or FCS3.0 file > > I use flowViz_1.24.0 and flowCore_1.24.2 > > Thank you very much! > > Maria Dzunkova > > > Department of Gastroenterology > Beth Israeal Deaconess Medical Center > Harvard University > Boston, MA > > > > > > This message is intended for the use of the person(s) to whom it may be addressed. It may contain information that is privileged, confidential, or otherwise protected from disclosure under applicable law. If you are not the intended recipient, any dissemination, distribution, copying, or use of this information is prohibited. If you have received this message in error, please permanently delete it and immediately notify the sender. Thank you.
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