[BioC] Problem reading files on FlowCore

[Nishant Gopalakrishnan]

Hi Sancho,

Each line of code in a vignette starts with a ">"  .  Parts of a code
chunk that does not fit into a single line and get  carried over to the
next line get a "+"   at the beginning of the line.

Additionally, the phenoData argument is case sensitive. (You have used
phenodata)
It would be a good idea to get familiar with the syntax of R before
attempting to go through work flows.

Nishant

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. 
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>> I type the instruction flowData <-read.flowSet(path = "C:\Documents
>>     
> and
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>> Settings\sanjo05\My Documents\BIOCONDUCTOR SOFTWARE", phenodata =
>>     
>
>   
>> "annotation.txt", + transformation = FALSE).
>>     
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>>     
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>> I get the following error message Error: unexpected '=' in "flowData
>>     
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>> <-read.flowSet(path = "C:\Documents and Settings\sanjo05\My
>>     
>
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>> Documents\BIOCONDUCTOR SOFTWARE", "annotation.txt", + transformation
>>     
> ="
>
>   
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>>  
>>     
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>> What am I doing wrong?
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>> Thanks
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>>     
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>> Jose Sancho
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>> Genzyme Corporation
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>> Flow Cytometry Core Facility
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>>     [[alternative HTML version deleted]]
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>> _______________________________________________
>>     
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>   
>> Bioconductor mailing list
>>     
>
>   
>> Bioconductor at stat.math.ethz.ch
>>     
>
>   
>> https://stat.ethz.ch/mailman/listinfo/bioconductor
>>     
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>> Search the archives:
>>     
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