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interactive visualizations - anyone use SVGAnnotation?
6 messages · Jeff Newmiller, Joseph Clark, Martin Morgan +1 more
Try RStudio's "Shiny".
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Joseph Clark <joeclark77 at hotmail.com> wrote:
Hi all:I found some great demonstrations of interactive presentation graphics generated in R with the SVGAnnotation package, here:http://www.omegahat.org/SVGAnnotation/http://www.omegahat.org/SVGAnnotation/SVGAnnotationPaper/SVGAnnotationPaper.htmlI tried to install the package available at that website (it's not on CRAN) and am getting some pretty uninformative errors (see below). My best guess is that the package worked under an earlier version of R but is broken now. Do any of you use this package for interactive presentation graphics? Or, what are some good alternative libraries? I've played around a bit with 'iplots' and RStudio's 'manipulate' library, but those are really geared for exploratory analysis. I'm looking for something geared toward presentation, for example, on a web page. A good "hello,world" I want to accomplish would be a time series with 2 or more line graphs that the viewer can choose between with radio buttons or checkboxes.Thanks in advance! The error I get when trying to install SVGAnnotation from the file: > install.packages("SVGAnnotation_0.93-1.tar.gz",repos=NULL) Warning in install.packages : package ?SVGAnnotation_0.93-1.tar.gz? is not available (for R version 2.15.1) Installing package(s) into ?C:/Program Files/R/R-2.15.1/library? (as ?lib? is unspecified) Warning in install.packages : error 1 in extracting from zip file Warning in install.packages : cannot open compressed file 'SVGAnnotation_0.93-1.tar.gz/DESCRIPTION', probable reason 'No such file or directory' Error in install.packages : cannot open the connection // joseph w. clark , phd , visiting research associate \\ university of nebraska at omaha - college of IS&T [[alternative HTML version deleted]] ------------------------------------------------------------------------
______________________________________________ R-help at r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
On 3/1/2013 9:12 AM, Joseph Clark wrote:
Hi all:I found some great demonstrations of interactive presentation graphics generated in R with the SVGAnnotation package, here:http://www.omegahat.org/SVGAnnotation/http://www.omegahat.org/SVGAnnotation/SVGAnnotationPaper/SVGAnnotationPaper.htmlI tried to install the package available at that website (it's not on CRAN) and am getting some pretty uninformative errors (see below). My best guess is that the package worked under an earlier version of R but is broken now. Do any of you use this package for interactive presentation graphics? Or, what are some good alternative libraries? I've played around a bit with 'iplots' and RStudio's 'manipulate' library, but those are really geared for exploratory analysis. I'm looking for something geared toward presentation, for example, on a web page. A good "hello,world" I want to accomplish would be a time series with 2 or more line graphs that the viewer can choose between with radio buttons or checkboxes.Thanks in advance! T
he erro
r I get when trying to install SVGAnnotation from the file: > install.packages("SVGAnnotation_0.93-1.tar.gz",repos=NULL)
Warning in install.packages : package ?SVGAnnotation_0.93-1.tar.gz? is not available (for R version 2.15.1) Installing package(s) into ?C:/Program Files/R/R-2.15.1/library? (as ?lib? is unspecified) Warning in install.packages : error 1 in extracting from zip file Warning in install.packages : cannot open compressed file 'SVGAnnotation_0.93-1.tar.gz/DESCRIPTION', probable reason 'No such file or directory' Error in install.packages : cannot open the connection
Hi Joseph --
likely you will be able to install with
install.packages("path/to/SVGAnnotation_0.93-1.tar.gz", repos=NULL,
type="source")
I've enjoyed using this package for producing heatmaps that can be moused over
and display information about underlying row / column values.
Martin
// joseph w. clark , phd , visiting research associate \\ university of nebraska at omaha - college of IS&T [[alternative HTML version deleted]]
______________________________________________ R-help at r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Dr. Martin Morgan, PhD Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109
Date: Fri, 1 Mar 2013 10:21:02 -0800
From: mtmorgan at fhcrc.org
likely you will be able to install with
install.packages("path/to/SVGAnnotation_0.93-1.tar.gz", repos=NULL,
type="source")
Thanks, I think you're on the right track but it still didn't work for me. Perhaps there's something in there that needs to be compiled, and my system doesn't have the tools. I solved my own problem by downloading a binary from this website: http://bioconductor.jp/packages/2.9/extra/html/SVGAnnotation.html It's verson 0.9-0 instead of the latest 0.93-1, but it installed with no problems. Now to see what it can do! I still welcome any recommendations of other tools for interactive presetation graphics with R. And, my apologies for the mangled HTML-email original message! // joseph w. clark , phd , visiting research associate \\ university of nebraska at omaha - college of IS&T
On 03/01/2013 11:21 AM, Joseph Clark wrote:
Date: Fri, 1 Mar 2013 10:21:02 -0800
From: mtmorgan at fhcrc.org
likely you will be able to install with
install.packages("path/to/SVGAnnotation_0.93-1.tar.gz", repos=NULL,
type="source")
Thanks, I think you're on the right track but it still didn't work for me. Perhaps there's something in there that needs to be compiled, and my system doesn't have the tools. I solved my own problem by downloading a binary from this website:
see RShowDoc("R-admin") section 3.1.1 which in abbreviated form is to run the
appropriate .exe from http://cran.r-project.org/bin/windows/Rtools/
Martin
http://bioconductor.jp/packages/2.9/extra/html/SVGAnnotation.html It's verson 0.9-0 instead of the latest 0.93-1, but it installed with no problems. Now to see what it can do! I still welcome any recommendations of other tools for interactive presetation graphics with R. And, my apologies for the mangled HTML-email original message! // joseph w. clark , phd , visiting research associate \\ university of nebraska at omaha - college of IS&T
Computational Biology / Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: Arnold Building M1 B861 Phone: (206) 667-2793
2 days later
Hi An alternative is the 'gridSVG' package http://www.stat.auckland.ac.nz/~paul/gridSVG/gridsvg.pdf Paul
On 02/03/13 06:12, Joseph Clark wrote:
Hi all:I found some great demonstrations of interactive presentation graphics generated in R with the SVGAnnotation package, here:http://www.omegahat.org/SVGAnnotation/http://www.omegahat.org/SVGAnnotation/SVGAnnotationPaper/SVGAnnotationPaper.htmlI tried to install the package available at that website (it's not on CRAN) and am getting some pretty uninformative errors (see below). My best guess is that the package worked under an earlier version of R but is broken now. Do any of you use this package for interactive presentation graphics? Or, what are some good alternative libraries? I've played around a bit with 'iplots' and RStudio's 'manipulate' library, but those are really geared for exploratory analysis. I'm looking for something geared toward presentation, for example, on a web page. A good "hello,world" I want to accomplish would be a time series with 2 or more line graphs that the viewer can choose between with radio buttons or checkboxes.Thanks in advance! The error
I get when trying to install SVGAnnotation from the file: > install.packages("SVGAnnotation_0.93-1.tar.gz",repos=NULL)
Warning in install.packages : package ?SVGAnnotation_0.93-1.tar.gz? is not available (for R version 2.15.1) Installing package(s) into ?C:/Program Files/R/R-2.15.1/library? (as ?lib? is unspecified) Warning in install.packages : error 1 in extracting from zip file Warning in install.packages : cannot open compressed file 'SVGAnnotation_0.93-1.tar.gz/DESCRIPTION', probable reason 'No such file or directory' Error in install.packages : cannot open the connection // joseph w. clark , phd , visiting research associate \\ university of nebraska at omaha - college of IS&T [[alternative HTML version deleted]]
______________________________________________ R-help at r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
Dr Paul Murrell Department of Statistics The University of Auckland Private Bag 92019 Auckland New Zealand 64 9 3737599 x85392 paul at stat.auckland.ac.nz http://www.stat.auckland.ac.nz/~paul/