Question: Image function
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gravatar for Priscila Grynberg
10.9 years ago by
Priscila Grynberg380 wrote:
Dear BioC, I'm trying to use de image function to generate spatial plots of spot statistics. I tried using the RG object, > image(RG[, 1], xvar="maRb", bar=TRUE) Error in image.default(RG[, 1], xvar = "maRb", bar = TRUE) : 'z' must be a matrix What should I do? Thanks, Priscila -- Priscila Grynberg, B.Sc., M.Sc. Doutoranda em Bioinformática (Bioinformatics D.Sc student) Laboratório de Genética Bioquímica Universidade Federal de Minas Gerais Tel: +55 31 3409-2628 CV: http://lattes.cnpq.br/8808643075395963 [[alternative HTML version deleted]]
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ADD COMMENTlink modified 10.9 years ago by Joern Toedling720 • written 10.9 years ago by Priscila Grynberg380
Answer: Image function
0
gravatar for Priscila Grynberg
10.9 years ago by
Priscila Grynberg380 wrote:
I suppose so, but I don't know what to do! Thanks. Priscila On Tue, Jan 6, 2009 at 11:00 AM, Pierre-Yves <pingou@pingoured.fr> wrote: > Priscila Grynberg wrote: > >> Dear BioC, >> I'm trying to use de image function to generate spatial plots of spot >> statistics. >> >> I tried using the RG object, >> >> image(RG[, 1], xvar="maRb", bar=TRUE) >>> >> >> Error in image.default(RG[, 1], xvar = "maRb", bar = TRUE) : >> 'z' must be a matrix >> > From ?image: > ## Default S3 method: > image(x, y, z, zlim, xlim, ylim, col = heat.colors(12), > add = FALSE, xaxs = "i", yaxs = "i", xlab, ylab, > breaks, oldstyle = FALSE, ...) > So I think you are not using the right arguments in your functions. > > Regards, > > Pierre > > -- Priscila Grynberg, B.Sc., M.Sc. Doutoranda em Bioinformática (Bioinformatics D.Sc student) Laboratório de Genética Bioquímica Universidade Federal de Minas Gerais Tel: +55 31 3409-2628 CV: http://lattes.cnpq.br/8808643075395963 [[alternative HTML version deleted]]
ADD COMMENTlink written 10.9 years ago by Priscila Grynberg380
Answer: Image function
0
gravatar for Joern Toedling
10.9 years ago by
Joern Toedling720 wrote:
Hi Priscila, I am not completely sure what kinds of plots you want to generate, but you may want to have a look at the "image.RGList" function in package Ringo and, more general, at the package arrayQualityMetrics which generates diverse sets of plots for quality assessment of microarray data. Please read the manual pages of these two functions for details about how to use these functions with your RGList object. There are many other options for related plots in Bioconductor. Hope this helps. Regards, Joern Priscila Grynberg wrote: > Dear BioC, > I'm trying to use de image function to generate spatial plots of spot > statistics. > > I tried using the RG object, > > >> image(RG[, 1], xvar="maRb", bar=TRUE) >> > > Error in image.default(RG[, 1], xvar = "maRb", bar = TRUE) : > 'z' must be a matrix > > What should I do? > > Thanks, > > Priscila >
ADD COMMENTlink written 10.9 years ago by Joern Toedling720
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