[R] 3D-scatterplots - high quality rendering?

I have just started using the package 'rgl' to explore my data as a 3D scatterplot. It's a great tool. But I would like to be able to save some graph views and it appears the only format available is 'png' and it doesn't look that nice. It is excellent to work with on screen and

Re: [R] 3D-scatterplots - high quality rendering?

Quoting Duncan Murdoch murdoch.dun...@gmail.com: j.delashe...@ed.ac.uk wrote: I have just started using the package 'rgl' to explore my data as a 3D scatterplot. It's a great tool. But I would like to be able to save some graph views and it appears the only format available is 'png'

Re: [R] data.frame query

you forgot to include output1 in your cbind call. what I normally do is initialise the variable where I want to store the dataframe prior to starting the loop: output1-NULL then run the loop, and within it there should be a: output1-cbind(output1, newdata) where 'newdata' will be the new

Re: [R] 3D-scatterplots - high quality rendering?

Quoting Duncan Murdoch murdoch.dun...@gmail.com: On 21/10/2010 1:23 PM, j.delashe...@ed.ac.uk wrote: Quoting Duncan Murdochmurdoch.dun...@gmail.com: j.delashe...@ed.ac.uk wrote: I have just started using the package 'rgl' to explore my data as a 3D scatterplot. It's a great tool. But

Re: [R] printing a variable during a loop

Thank you for this! I had also wanted in the past to do this, and ended up writing dummy files with informative names to a folder I set to collect these messages, so I'd check the folder to see the new files being generated... It did the job, and at the same time I could see how long it

Re: [R] Odp: importing csv gets me all 16,000 columns with NA

Quoting Petr PIKAL petr.pi...@precheza.cz: There are many ways how to import whole file by read.* commands but you could also check scan or readLines functions. The result always depends on looklike of your input file (separators, decimals, missing values etc.) Regards Petr When a file

[R] how to read/save .zip compressed files from R?

Dear list, is there a way to open a .zip folder so that one can extract and modify files inside and then save teh .zip folder again? thanks! Jose -- Dr. Jose I. de las Heras Email: j.delashe...@ed.ac.uk The Wellcome Trust Centre for Cell BiologyPhone: +44 (0)131

Re: [R] how to read/save .zip compressed files from R?

Quoting Jeff Newmiller jdnew...@dcn.davis.ca.us: In the way you describe it, no. A) There is no such thing as a zip folder. You are most likely being fooled by the visual presentation of zip files in Windows Explorer, which automatically simulates it as a folder, when it is really

Re: [R] how to read/save .zip compressed files from R?

Quoting Prof Brian Ripley rip...@stats.ox.ac.uk: See also Omegahat package Rcompression (a copy of which for Windows is on CRANextras). Thank you, I will look into that. But I would do this via unzip, modify, zip once or even 10 times, yes. After that it gets boring :) I'd like to use

Re: [R] concatenate values in the vector

Unfortunately the shorter version does not do what the op asked. The correct way is using the 'collapse' parameter. Using paste on a vector of length n with the parameter 'sep' you get a vector of n elements. If you use collapse you get a single string. Jose Quoting Cristian Montes

Re: [R] how to read/save .zip compressed files from R?

Quoting Erik Iverson er...@ccbr.umn.edu: j.delashe...@ed.ac.uk wrote: Quoting Prof Brian Ripley rip...@stats.ox.ac.uk: See also Omegahat package Rcompression (a copy of which for Windows is on CRANextras). Thank you, I will look into that. But I would do this via unzip, modify, zip

[R] how to display a string containing greek chrs and variables

I'm trying something that I thought would be pretty simple, but it's proving quite frustrating... I want to display, for instance, the correlation coefficient rho in a graph. I can do something like: text(x, y, paste(rho =, cor)) where cor would be my previously calculated correlation

Re: [R] how to display a string containing greek chrs and variables

Quoting baptiste auguie baptiste.aug...@googlemail.com: Hi, try this, plot.new() x=0.8 text(0.5, 0.5, bquote(rho == .(x))) HTH, baptiste Aha! That does exactly what i wanted! Thanks! Jose -- The University of Edinburgh is a charitable body, registered in Scotland, with registration

Re: [R] how to display a string containing greek chrs and variables

Quoting Peter Ehlers ehl...@ucalgary.ca: j.delashe...@ed.ac.uk wrote: Quoting baptiste auguie baptiste.aug...@googlemail.com: Hi, try this, plot.new() x=0.8 text(0.5, 0.5, bquote(rho == .(x))) HTH, baptiste Aha! That does exactly what i wanted! Thanks! Jose But does it do what it

[R] strange behaviour: recognition of decimal numbers by 'which'

It is a strange behaviour in that I did not expect it... but I am sure there is a simple explanation for it and it'll have to do with the way numbers are stored in R, but it's caught me by surprise and I don't find it obvious. Here's a simplified example reproducing the behaviour I

Re: [R] strange behaviour: recognition of decimal numbers by 'which'

Concise and perfect answer. Thanks! I'm surprised I never came across this issue before (4 years playing with R). Jose Quoting Erik Iverson er...@ccbr.umn.edu: FAQ 7.31 j.delashe...@ed.ac.uk wrote: It is a strange behaviour in that I did not expect it... but I am sure there is a

[R] selecting a group of points from a scatterplot?

Hi everyone, is there a way/package in R that would allow me to select a group of points from a scatterplot by drawing a circle around them or some such? I can use 'identify' to pick individual points, but that gets tedious if one has more than 10-20 spots. I can easily select spots

Re: [R] Import from excel 2007

Quoting Scionforbai [EMAIL PROTECTED]: I just wonder: why should R and its community try to support such an awful program, with its protected formats and unmantained features/bugs? I mean, from both philosophical and technical point of view: R is free software and should rather try to be

Re: [R] Import from excel 2007

Quoting Scionforbai [EMAIL PROTECTED]: It would be dumb to ignore the fact that Excel is a very widespread program, and therefore in the real world we are very likely to encounter data formatted by Excel. Of course I know the widespreading of such programs. But the point is: how can we

[R] Opening a web browser from R?

Hi, I was wondering if there's a way in R to open a web browser (such as Internet Explorer, or Firefox or whatever). I'm doing some analyses that have associated urls, and it would be nice to have the ability to directly open the relevant page from within R. I was looking at the help for

Re: [R] Opening a web browser from R?

Fantastic! That's perfect. how didn't I find that??? Thank you! Jose Quoting Henrique Dallazuanna [EMAIL PROTECTED]: Use browseURL: browseURL('about:blank') On Fri, Aug 15, 2008 at 7:55 AM, [EMAIL PROTECTED] wrote: Hi, I was wondering if there's a way in R to open a web browser

Re: [R] Opening a web browser from R?

Thanks to everyone who replied to me, both on and off-list. Indeed, searching for url alone finds 'browseURL' and the very interesting 'shell.exec'... I must have had a fuzzy moment because I did not see it when I first looked, but yes, there they are! So, apologies for asking something

[R] read.table readLines behaviour?

Hi, I have been using 'read.table' regularly to read tab-delimited text files with data. No problem, until now. Now I have a file that appeared to have read fine, and the data inside looks correct (structure etc), except I only had 15000+ rows out of the expected 24000. Using 'readLines'

Re: [R] read.table readLines behaviour?

Quoting Peter Dalgaard [EMAIL PROTECTED]: [EMAIL PROTECTED] wrote: Hi, I have been using 'read.table' regularly to read tab-delimited text files with data. No problem, until now. Now I have a file that appeared to have read fine, and the data inside looks correct (structure etc), except I

Re: [R] read.table readLines behaviour?

The result was 11, 24001 times, as I expected originally. hmmm... JOse Quoting Gabor Grothendieck [EMAIL PROTECTED]: Try looking at the result of count.fields to diagnose it. On Tue, Sep 23, 2008 at 5:19 AM, [EMAIL PROTECTED] wrote: Hi, I have been using 'read.table' regularly to read

[R] Saving a workspace with extras?

Hi everyone, I hope there's a simple way to achieve what I want, but I haven't found the way. I do microarray analysis using R and a number of packages as well as some functions created my myself. When I save the workspace, it saves all the data structures, that's great... But when I

Re: [R] Saving a workspace with extras?

Excellent! Thanks for the pointers. Although the functions were indeed loaded with a source() call... I'll recheck the behaviour and see if I get this to work how I want it. thanks again! Jose Quoting Sarah Goslee [EMAIL PROTECTED]: Functions you've loaded using source() should be

[R] Calling R from a Perl script: much slower?

Hello list, I use R for microarray analysis. One procedure I use takes a large matrix, and loops through it looking for specific rows, does an operation with them, and outputs a result (single row) as a row of another matrix. The loop goes on about 25000 times. When I run the loop

Re: [R] Calling R from a Perl script: much slower?

Ah! sorted! it was NOT running the same code. We're making a GUI using Perl (Tcl/Tkx) to facilitate a number of analyses in our lab to other people who don't necessarily want to know about R (their loss ;-) I provided the R code to my colleague and he assured me he used it without