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Perhaps interesting for some: http://www.turing-gateway.cam.ac.uk/tgmw39.shtml

Today I get, after ?svn up" whuber at boltzmann:~/madman/Rpacks$ find . -name .git -exec du -sh {} \; 17M ./anamiR/anamiR/.git 56K ./RareVariantVis/.git Probably the ?.git" folders should not be checked in? Best wishes Wolfgang

My apologies. Clicked ?send? prematurely with wrong recipient. Il giorno 16 Feb 2014, alle ore 09:46, Wolfgang Huber <whuber at embl.de> ha scritto: > > FYI: > > Revolution Analytics staff write about R every weekday at the Revolutions blog: > http://blog...

Dear Klaus Good points. I am not trying to ?poach? anything here, and guess you have discussed this, but with this number of reverse dependencies, it sounds like the maintainers, contributors and users of ape and phangorn could benefit from...

Hi is there already a best practice (example?) for how to deliver vignettes written in org-mode (http://orgmode.org) in Bioconductor packages? (This would also require that emacs and its ESS and org modes are installed on the build...

Sorry if I have overlooked something? referring to http://www.bioconductor.org/developers/how-to/workflows Is there a standardized way to manage - dependencies - versions In principle, these could be automagically computed (?), but would still have to be exposed to...

Dear Bunny, ? table might be what you wish. Best wishes Wolfgang Huber EBI bunny , lautloscrew.com wrote: > Hi there, > > is there a possibility to count the number of appearances of an > element in a vector ? > i mean of any given...

Hi all, I hope I have not missed the obvious...: does anyone know a function in R (or in a package) that sorts the elements of a list based on a user-defined comparison function? -- Best wishes Wolfgang ------------------------------------------------------------------ Wolfgang Huber...

Does anybody intend to submit a "Tutorial Proposal" to ISMB 2006? http://ismb2006.cbi.cnptia.embrapa.br/tutorial_call.html I suppose that in some way it would make a lot of sense for some of us to be there...

Hi Vince, can we finally get rid of the "characterORMIAME" class, and have the description slot just be of class MIAME? setClass("eSet", representation( assayData = "listOrEnv", sampleNames = "character", reporterNames = "character", description = "characterORMIAME", notes = "character", annotation = "character", history = "character" ), -- Best regards...

Hi, currently, biocLite("GreatNewPackage") will produce package ?GreatNewPackage? is not available if called, say, from R 2.13 if GreatNewPackage is only in R-devel. To help our less sophisticated users, would it be possible that biocLite advised them of...

PS: > ...For larger problems, there are more efficient nearest neighbor > search algorithms, but I am not aware whether or where in R. The 'but' subclause was wrong, one place to look at is the "yaImpute" package and also this thread...

Hi Seth, > Wolfgang Huber <huber at ebi.ac.uk> writes: >> Do people have any strong objections to changing defaults to: >> sep="\t", header=TRUE, quote ="", as.is=TRUE > > I wonder if we want to set stringsAsFactors=TRUE instead? It is...

Perhaps of interest to some: http://www.nature.com/ng/journal/v46/n3/full/ng.2914.html Community standards for data access, interoperability and metadata only make sense if data are creatively reused to further research. We are therefore inviting...

Hi, since the release is coming, and there is lots of activity in svn, I am wondering what is the intended of frequency of builds on the test page: http://bioconductor.org/checkResults/devel/bioc-LATEST/ or whether it can...

What is the correct English pronounciation of the function name "arsinh"? (Please excuse that this is is quite an R question, but this list is the best place I can think of for people to know the answer.) Wolfgang Huber...

Hi All, just a reminder that it is good practice to bump up the package version when you commit a change to a package's source, even if you consider it 'trivial'. Version numbers are free, while the confusion ensuing...

Dear Martin, thanks! That was a quick reply / improvement of the functionality. Best wishes Wolfgang ------------------------------------------------------------------ Wolfgang Huber EBI/EMBL Cambridge UK http://www.ebi.ac.uk/huber > > Actually, updateObject would (< v 1.13.17) add an se.exprs matrix of...

Hi Martin, Robert, Seth what's up with "TypeInfo"? Seems that nobody has been using it so far in Bioconductor: huber at lobito:~/madman/Rpacks$ find . -name DESCRIPTION \ -exec grep -H TypeInfo {} \; ./TypeInfo/DESCRIPTION:Package: TypeInfo ......and nothing else...... and...

On Thu, 6 Mar 2003, Dirk Eddelbuettel wrote: > AFAIK that is a feature. Look at the example(write.table), it does precisely > this and gets data back and forth to Excel. > Hi Dirk, thanks! Seems I should have better read...