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[netCDF #SCH-450091]: GWASTools & Affymetrix



Hi Silvano,

> It's possible make this with RStudio in Windows 7?

Sorry to have taken so long to respond to your question, but we
don't know the answer.  We have no knowledge of RStudio, nor is
it installed on any of our testing platforms.

--Russ

> > Hi Silvano,
> >
> >> I'm trying to use GWASTools (software R) with data provided by
> >> Affymetrix.
> >>
> >> I want to read intensity data.
> >>
> >> The command GWASTools is provided by:
> >>
> >> file <- system.file ("extdata", "affy_qxy.nc" package = "GWASdata")
> >> nc <- NcdfIntensityReader (file)
> >>
> >> where file receives data affy_qxy_nc, the subdirectory extdata, GWASdata
> >> package.
> >>
> >> The question is: which variables are presents in affy_qxy_nc and how to
> >> obtain them from the archives of Affymetrix?
> >
> > I'm guessing you need to use the "ncdump" command-line tool with option
> > "-c", as in:
> >
> >   ncdump -c affy_qxy.nc
> >
> > to show you all the variables, along with their types, shape, and
> > attributes.
> >
> > You can get ncdump if you install netCDF from source:
> >
> >   http://www.unidata.ucar.edu/downloads/netcdf/netcdf-4_2_1_1/
> >
> > or from one of the binary Windows distributions available here:
> >
> >   http://www.unidata.ucar.edu/software/netcdf/win_netcdf/
> >
> > --Russ
> >
> >> ---------------------------------------------
> >> Silvano Cesar da Costa
> >>
> >> Universidade Estadual de Londrina
> >> Centro de Ciências Exatas
> >> Departamento de Estatística
> >>
> >> Fone: (43) 3371-4346
> >> ---------------------------------------------
> >>
> >>
> > Russ Rew                                         UCAR Unidata Program
> > address@hidden                      http://www.unidata.ucar.edu
> >
> >
> >
> > Ticket Details
> > ===================
> > Ticket ID: SCH-450091
> > Department: Support netCDF
> > Priority: Normal
> > Status: Closed
> >
> >
> >
> 
> 
> ---------------------------------------------
> Silvano Cesar da Costa
> 
> Universidade Estadual de Londrina
> Centro de Ciências Exatas
> Departamento de Estatística
> 
> Fone: (43) 3371-4346
> ---------------------------------------------
> 
> 
Russ Rew                                         UCAR Unidata Program
address@hidden                      http://www.unidata.ucar.edu



Ticket Details
===================
Ticket ID: SCH-450091
Department: Support netCDF
Priority: Emergency
Status: Closed