Thanks Andrew for pointing this out ! I understand the limitation clearly now. Regards, Julien 2012/12/1 A H <hillan141@gmail.com> > Hi Julien, > > Unlike some transcriptional datasets, the parameters measured for each > event (cell) in FCS are not necessarily correlated. > > Because of this, it is not always safe to assume that two events, 1 from > Panel A and 1 from panel B, that have similar values of SSC, FSC, CD45 and > CD3, are members of the same cell population and also have similar values > of the non-common channels CD4, CD5, CD8, CD16, CD19, and HLA-DR. For > example, in your data I speculate you would have a range of CD4 or > CD8 values within a cluster of events that is defined by common values of > SSC, FSC, CD45 and CD3. > > Regards, > Andrew. > > -------------------- > Message: 11 > > Date: Sat, 1 Dec 2012 11:25:36 +0100 > > From: Julien Textoris <julien.textoris@gmail.com> > > To: bioconductor@r-project.org > > Subject: [BioC] Merging various panel for flow cytometry > > Message-ID: > > <cadzdnvfxhwjclzsmmr7ygn5cgngf0lda+memw- n12kx_1aspjw@mail.gmail.com=""> > > Content-Type: text/plain > > > > Hi all, > > > > I'm quite new to flow cytometry, since i have mostly perfomed > > transcritionnal analyses before. I discovered the flowCore, flowViz, > > flowXXX packages in bioconductor and found it amazing. > > > > I have a series of data with two different panels (tubes) for each patient. > > As there are some common markers in both panels, i was wondering if i could > > merge the two into a single flowSet with more channels. > > > > In details : > > > > - for panel A I have SSC, FSC, CD45, CD3, CD4, CD8, HLA-DR > > - for panel B I have SSC, FSC, CD45, CD3, CD5, CD19, CD16 > > > > I would like to obtain a single merged-panel with : SSC, FSC, CD3, CD45, > > CD4, CD8, CD5, CD19, CD16, HLA-DR > > > > I was thinking that the dataset is composed roughly of a matrix with for > > each leukocyte (event, =row) a value for all channels above (columns). So, > > maybe it would be possible to try to clusterise by pairs the rows of panel > > A and those of panel B on common values of SSC, FSC, CD45 and CD3. The > > result dataset would take the mean of the common channels and then the > > single values for CD4, CD5, CD8, CD16, CD19, HLA-DR. > > > > I would be glad to have your comment on this before starting. Maybe it has > > already been done in some package, or maybe one would have a comment to > > take into accoutn before i start ? > > > > Thanks in advance. > > Julien > > > > -- > > Envoy?? de mon ENIAC > > > > Julien Textoris, MD, PhD > > Laboratoire d'immunologie, > > UMR CNRS 7278, INSERM U1095 > > Facult?? de M??decine Timone, Marseille > > +33 (0)4 91 32 49 71 > > > > Service d'anesth??sie et de r??animation > > H??pital Nord, Marseille > > +33 (0)4 91 96 55 31 > -- Envoyé de mon ENIAC Julien Textoris, MD, PhD Laboratoire d'immunologie, UMR CNRS 7278, INSERM U1095 Faculté de Médecine Timone, Marseille +33 (0)4 91 32 49 71 Service d'anesthésie et de réanimation Hôpital Nord, Marseille +33 (0)4 91 96 55 31 [[alternative HTML version deleted]]