[BioC] Problem reading files on FlowCore

[Sancho, Jose]

Thank you, Chao-Jen and Nishant for your answers. 

I am not really familiar with R, I just read a couple of papers
regarding several software packages for Flow Cytometry analysis and I
decided to give it a go, not as easy as it looks.
Can you point me to the right source to familiarize with Flowcore?

Once again, thanks.

Jose Sancho
Flow Cytometry Core Facility.
Genzyme Corp.
-----Original Message-----
From: Chao-Jen Wong [mailto:cwon2 at fhcrc.org] 
Sent: Thursday, February 18, 2010 2:43 PM
To: Sancho, Jose
Cc: bioconductor at stat.math.ethz.ch
Subject: Re: [BioC] Problem reading files on FlowCore

Eliminate the "+" sign on your command. The "+" sign on Nishant's
workflow document (and all the bioconductor vignette) indicates that the
compound expression  or arguments  are continuing.   It is automatically
added by R.  When you program in R, you don't need to manually write
"+".

Chao-Jen

Sancho, Jose wrote:
>
> I am afraid I do not know. I am following the instructions as set on
> Flow cytometry data analysis using Bioconductor - A typical work flow.
>
> Nishant Gopalakrishnan
>
> July 23, 2009
>
>  
>
> And I can't load the fcs files.
>
>  
>
> -----Original Message-----
> From: Chao-Jen Wong [mailto:cwon2 at fhcrc.org]
> Sent: Wednesday, February 17, 2010 6:04 PM
> To: Sancho, Jose
> Cc: bioconductor at stat.math.ethz.ch
> Subject: Re: [BioC] Problem reading files on FlowCore
>
>  
>
> Hi Jose,
>
>  
>
> May I ask why there is a "+" sign before the transformation argument?
>
>  
>
> -C.J.
>
>  
>
> Sancho, Jose wrote:
>
> > I am new to FlowCore, and I am trying to get the demo files,as
described
>
> > on Flow Cytometry data analysis using Bioconductor- A typical work
flow,
>
> > and having difficulties.
>
> > 
>
> > 
>
> > 
>
> > I type the instruction flowData <-read.flowSet(path = "C:\Documents
and
>
> > Settings\sanjo05\My Documents\BIOCONDUCTOR SOFTWARE", phenodata =
>
> > "annotation.txt", + transformation = FALSE).
>
> > 
>
> > 
>
> > 
>
> > I get the following error message Error: unexpected '=' in "flowData
>
> > <-read.flowSet(path = "C:\Documents and Settings\sanjo05\My
>
> > Documents\BIOCONDUCTOR SOFTWARE", "annotation.txt", + transformation
="
>
> > 
>
> > 
>
> > 
>
> > What am I doing wrong?
>
> > 
>
> > 
>
> > 
>
> > Thanks
>
> > 
>
> > 
>
> > 
>
> > Jose Sancho
>
> > 
>
> > 
>
> > 
>
> > Genzyme Corporation
>
> > 
>
> > Flow Cytometry Core Facility
>
> > 
>
> > 
>
> >     [[alternative HTML version deleted]]
>
> > 
>
> > _______________________________________________
>
> > Bioconductor mailing list
>
> > Bioconductor at stat.math.ethz.ch
>
> > https://stat.ethz.ch/mailman/listinfo/bioconductor
>
> > Search the archives:
> http://news.gmane.org/gmane.science.biology.informatics.conductor
>
> >  
>
>  
>
>  
>
> -- 
>
> Chao-Jen Wong
>
> Program in Computational Biology
>
> Division of Public Health Sciences
>
> Fred Hutchinson Cancer Research Center
>
> 1100 Fairview Avenue N., M2-B876
>
> PO Box 19024
>
> Seattle, WA 98109
>
> 206.667.4485
>
> cwon2 at fhcrc.org
>
>  
>


-- 
Chao-Jen Wong
Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Avenue N., M2-B876
PO Box 19024
Seattle, WA 98109
206.667.4485
cwon2 at fhcrc.org