Re: [R] Suggestions for workaround for R Markdown problem with data() ?

forums with a reproducible example. If it turns out to be a bug in the package, keep in mind that that is a Bioconductor package and they, too, have their own support forum. --- Jeff NewmillerThe

Re: [R] rename columns with pattern

Read the help page for the names function: ?names ... note particularly the examples section. You might also find the fact that the paste0 function works on vectors to be helpful: paste0( "bp_", 1:6 ) --- Jeff

Re: [R] ggplot barchart: bars don't stock on breaks

ry but not sufficient... you need to supplement with the book and/or lots of examples/training.) --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go...

Re: [R] Saving an edited function in R Studio

other list message. This will avoid our seeing a mangled version if your message and being perplexed. --- Jeff NewmillerThe . . Go Live... DCN:Basics: #

Re: [R] seek(), Windows and Cygwin (was "a UNIX vs. Windows package question, please")

tical opinion, not from experience. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Pl

Re: [R] Help on Principal Component Analysis in R

o you know what we will see. [1] http://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example --- Jeff NewmillerThe . . Go Live... DCN:

Re: [R] merging pre-sorted data frames

g guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. --- Jeff NewmillerThe . . Go Live... DCN:

Re: [R] constrast in edge R

You seem to be writing in a jargon that is not typical on this list, and I cannot identify what package you are using. I suspect that you need to be asking your question in the Bioconductor support area. --- Jeff Newmiller

Re: [R] passing elements of named vector / named list to function

. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (Solar/BatteriesO.O#. #.O#. with

Re: [R] what is isdst parameter

in plain text on this mailing list. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO

Re: [R] Cube of Matrices or list of Matrices

enting the wheel and have already reviewed their tools. [1] http://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example --- Jeff NewmillerThe . . Go L

Re: [R] New to R

more extensive documentation about those APIs that you will need to be familiar with in order to make progress with them. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#.

Re: [R] need help with excel data

elp@r-project.org mailing list -- To UNSUBSCRIBE and more, see 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. --

Re: [R] 'which' statement for recode?

. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (Solar/BatteriesO.O#. #.O#. with /Software

Re: [R] Package Build Suggestions

directory or let the user decide where to put it. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO

Re: [R] extracting significance test for individual lm() parameters after using by

, and this list is not a good place for studying statistics theory (read the Posting Guide). You might try stats.stackexchange. com. --- Jeff NewmillerThe . . Go Live... DCN

Re: [R] Passing a Data Frame Name as a Variable in a Function

. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (Solar/BatteriesO.O#. #.O#. with

Re: [R] df pseudoreplication in lme model

example that illustrates the type of data you are working with as well as your code. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go

Re: [R] How can I get the same result after running function maximinESE_LHS?

. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (Solar/BatteriesO.O#. #.O#. with

Re: [R] How to enable https for R 3.1.2 on windows 8.1

Honestly? Did you try "rcurl https windows" (without the quotes)? --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#

Re: [R] save program results and graphs to one file

In general this depends what you plan to do with those results. I suspect you are looking for something like knitr with rmarkdown (.Rmd files to create HTML or Word) or LaTeX (.Rnw files to create PDF). --- Jeff Newmiller

Re: [R] Error: OutOfMemoryError (Java): GC overhead limit exceeded

documentation on the X parameter). --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing

Re: [R] How to enable https for R 3.1.2 on windows 8.1

in libcurl". http://curl.haxx.se/docs/faq.html --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live:

Re: [R] rJava Scientific Linux 6.5 - Can not install

Don't know anything about SL but have you installed a Java run time independent of R? --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Li

Re: [R] How to enable https for R 3.1.2 on windows 8.1

I am not aware that Windows demands double quotes for anything in R. I think the spaces was the problem. --- Jeff NewmillerThe . . Go Live... DCN:Basics

Re: [R] Updating to R 3.1.1. - impacts on existing packages

and provide commented, minimal, self-contained, reproducible code. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live

Re: [R] the less-than-minus gotcha

ved syntaxes over the overloaded = from, say, Basic. I am sure you can get by with the syntactic overloading, but if you have the option of reducing ambiguity, why not use it? --- Jeff Newmiller

Re: [R] New to R

n show you how to connect the dots using R. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.

Re: [R] FFT Normalization Documentation

riodic!) time signals. Hoping this helps, I remain With best wishes, Frank Franklin Bretschneider Dept of Biology Utrecht University brets...@xs4all.nl [[alternative HTML version deleted]] __ R-help@r-project.org mailing list -

Re: [R] How to check a regression model's fit?

ng list archive. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research

Re: [R] AMBUR package will not build

You may be able to learn something useful from how the maptools package handles that dependency? --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go

Re: [R] FFT Normalization Documentation

sting "trick" to put in the examples. On Tue, 3 Feb 2015, Franklin Bretschneider wrote: Dear Elke; Jeff, Re: Eike: Understanding Discrete Fourier Transform theory is not trivial... while a vignette added to the stat package has the potential help a lot of users, it is a bit ambit

Re: [R] How to download and unzip data in a loop

u can also wrap it up in a function and set debug mode for that function and then you can single step through it. One thing that looks wrong is lack or braces surrounding the body of the for loop. --- Jeff Newm

Re: [R] Rotate array by 90°

?aperm aperm(A, c(2,1,3) )[,3:1,] --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO

[R] Zero length data block in hexView?

ve cobbled together some code to read part of the header but it doesn't parallel the format definition very well. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#.

Re: [R] Help

. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (Solar/Batteries

Re: [R] Download internet videos

The set of things that R can do is not a subset of the set of things packages may have been written for. Have at it. --- Jeff NewmillerThe . . Go Live... DCN:Basics

Re: [R] Subsetting data with svyglm

You might also find Pat Burns' "The R Inferno" entertaining as well (search for it in your favorite search engine). --- Jeff NewmillerThe . . Go Live... DCN:Bas

Re: [R] apply two functions to column

ve you from having to retype DF more than once, but in this case even achieving that requires more typing than the above does. --- Jeff NewmillerThe . . Go Live... DCN:Basics

Re: [R] Installing RStudio

Ah, ask in the RStudio support area? --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead

Re: [R] problems with packages installation

Time to (re)read the Posting Guide... questions about unreleased versions of R are off topic here. Go to R-devel. --- Jeff NewmillerThe . . Go Live... DCN:Basics

Re: [R] problems with packages installation

if you are sure it is a bug then filling a report is the right thing to do. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#

Re: [R] How can you validate association rules?

http://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Li

Re: [R] [Question] about plot.xts

list. We don't see the formatting that you see, so don't delude yourself into thinking that we do. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#.

Re: [R] Noob question re: writing while loops on one line

Best not to be pedantic, John, unless you are going to be right. Please read section 10.3.5 in the R Language Definition document. This is R, not C. --- Jeff NewmillerThe . . Go

Re: [R] list of list

You have two named objects when your goal is to have one that contains five others. ASL <- vector( "list", 5 ) for (j in 1:5){ ASL[[j]] <- vector( "list", 5 ) for (i in 1:5) { ASL[[j]][[i]] <- i^j } } ---

Re: [R] Numerical stability of eigenvalue and hessian matrix in R

r specific problem as such tricks are not R-specific. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.

Re: [R] return named list from foreach

not a good name to use. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research En

Re: [R] creating a distinct zip file

R CMD INSTALL --build packagename --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO

Re: [R] Replacing 9999 and 999 values with NA

posting using plain text (a setting in your email program) so we don't get garbled info from you, and providing a reproducible example. --- Jeff NewmillerThe . . Go Live..

Re: [R] Example of Calling a DLL

-visualstudio-and-gcc --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research

Re: [R] creating a distinct zip file

On Windows it builds a zip file. If you are on Linux, you might [1] need [2]. [1] https://stat.ethz.ch/pipermail/r-help/2005-January/063596.html [2] http://cran.r-project.org/doc/contributed/cross-build.pdf --- Jeff Newmiller

Re: [R] creating a distinct zip file

d does not do what you want it to, I am not sure we are speaking of the same kind of file. If we are, then you may not have your system configured correctly. --- Jeff NewmillerThe .

Re: [R] Issue wit Package installation and download.file()

This sounds like you should read FAQ 2.19. Next time you post, please read the Posting Guide first. In particular, please use plain text since your HTML-formatted email was messed up on the mailing list. --- Jeff Newmiller

Re: [R] HELP asin transformation

This is a math question, not an R question. You cannot give numbers to asin that are less than -1 or greater than 1 and get a defined answer. --- Jeff NewmillerThe . . Go Live... DCN

Re: [R] Error with using windRose function from the open air package

cible-example --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (So

Re: [R] plotting multiple time series under one panel

reproducible-example --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (Solar/BatteriesO.O#. #

Re: [R] plotting multiple time series under one panel

et_wrap function with ggplot. If that tip is not >sufficient, then re-read my previous response to guide you in posting a more >complete question. --- Jeff NewmillerThe . . Go Live

Re: [R] Processing key_column, begin_date, end_date in R

) %>% ungroup %>% select( -gp ) %>% as.data.frame ) --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#.

Re: [R] covert entire dataset to numeric while persuing percentage values

ile into your example so we could troubleshoot your input process better if that is where your problem is. [1] http://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example --- Jeff Newmiller

Re: [R] aggregating variables (sum within groups)

. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (Solar/BatteriesO.O#. #.O#. with

Re: [R] Summing certain values within columns that satisfy a certain condition

col=ncol( dtam ), nrow=nrow( dtam ), byrow=TRUE ) ) --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (Solar/Batteri

Re: [R] r script in web

I cannot see how that would be possible. R must be installed in order to use it. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go

Re: [R] figure resolution

roject.org/posting-guide.html [2] http://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example --- Jeff NewmillerThe . . Go Live... DCN:

Re: [R] Looping and break

ys to accomplish the kinds of things you might want to accomplish without them, and those alternatives often don't involve explicit loops at all. --- Jeff NewmillerThe . . Go L

Re: [R] Looping and break

Sigh. To be positive is to be wrong at the top of one's lungs. Next I will be told R has a goto statement. --- Jeff NewmillerThe . . Go Live... DCN:B

Re: [R] How to speed up a double loop?

. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (Solar/BatteriesO.O#. #.O#. with /Software/Embedded

Re: [R] table

I suspect that the tabular function in the tables package would handle this task. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go

Re: [R] Using a text file as a removeWord dictionary in tm_map

text where spaces are present. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Pl

Re: [R] help with RODBC

Why do you have single quotes inside your single quotes? --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go

Re: [R] Find the name of the package with called the function

o call. If you need to manipulate an object, use some form of method dispatching (I like S3, but you have alternatives) on an object you pass in. --- Jeff NewmillerThe . . Go L

Re: [R] R 3.1.2 using a custom function in aggregate() function on Windows 7 OS 64bit

# so don't use cbind when making a data frame library( dplyr ) result <- dat %>% group_by( g ) %>% do( answer = d_rule( . ) ) %>% as.data.frame --- Jeff Newmiller

Re: [R] help with RODBC

is on topic... R-sig-db. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (Solar/BatteriesO.O#.

Re: [R] R 3.1.2 using a custom function in aggregate() function on Windows 7 OS 64bit

I don't see your point. No matter which version of aggregate you use, FUN is applied to vectors. Those vectors may be columns in a data frame or not, but FUN is always given one vector at a time by aggregate. ---

Re: [R] R 3.1.2 using a custom function in aggregate() function on Windows 7 OS 64bit

n't use "aggregate" very often. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.

Re: [R] How to see a R function's code

location of your choice and dig in. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO

Re: [R] Merge List element by name

/questions/5963269/how-to-make-a-great-r-reproducible-example --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go

Re: [R] Rstudio R-devel libR.so

Please read the Posting Guide. Unreleased versions of R are off-topic in this mailing list (see the R-devel mailing list). RStudio-specific questions are also off-topic here (should be about R, not IDEs). --- Jeff Newmiller

Re: [R] calculate value in dependence of target value

//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. --- Jeff NewmillerThe . . Go

Re: [R] Alpha not working in geom_rect

e this problem. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (Solar/BatteriesO.O#.

Re: [R] problem applying the same function twice

uncompelling, though. Of the information necessary to draw valid conclusions is absent, the results you obtain by doing so is going to be questionable at best. --- Jeff NewmillerThe . . Go

Re: [R] .Rprofile vs. First (more of an opinion question)

optional in my workflow because I always have R code that can regenerate them. .Rprofile files offer consistency of behavior regardless of which working directory you use, and you can comment them. --- Jeff Newmiller

Re: [R] R-studio stalls in arulesSequences

. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (Solar/BatteriesO.O#. #.O

Re: [R] .Rdata files -- fortune?

I was positive I knew WTF I was doing until you set me straight, Rolf. ;-) --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go

Re: [R] R match - could be improved ?

seq(950L, 1000L) myvector5 <- match(myvector4, myvector3) I think the as.list is working because match is internally converting to character and comparing that... which makes the as.list solution rather inefficient art best.

Re: [R] Prevent line truncation in system2() output

You don't say which operating system you are using, but this sounds like it could easily be affected by your OS (even of in this case it isn't). My suggestion would be to use a temporary file. --- Jeff

Re: [R] xlims of box() function

This is nonsense. Please provide a reproducible example. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go

Re: [R] Plotting straight line

ou from scratch. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (

Re: [R] Add the Gauss curve on histogram

Not reproducible (sample data missing). http://stackoverflow.com/questions/5963269/how-to-make-a-great-r-reproducible-example --- Jeff NewmillerThe . . Go Live... DCN:Basics

Re: [R] Returning to parent function

Perhaps read ?try --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing

Re: [R] An easy question on package building/installation

topic here, but there is a button/menu item that will execute these commands for you in the GUI of that program. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. #

Re: [R] Joining two datasets - recursive procedure?

producible-example --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Researc

Re: [R] RSQLite will not install in R 2.15.0

. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engineer (Solar/BatteriesO.O

Re: [R] My R stopped working

de by the time it gets to us. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Pl

Re: [R] ggplot2 Error : cannot allocate vector of size 1.9 Gb

Upgrade your copy of R to the latest. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead

Re: [R] ggplot2 Error : cannot allocate vector of size 1.9 Gb

is corrupted because you are posting using HTML format email rather than plain text as the Posting Guide tells you to. --- Jeff NewmillerThe . . Go Live... DCN:Basics

Re: [R] ggplot2 Error : cannot allocate vector of size 1.9 Gb

Another thought... if you have a ".RData" file in your working directory, you might want to delete or rename it. --- Jeff NewmillerThe . . Go Live... DCN:

Re: [R] facets work in qplot but facet_wrap produces an error in ggplot

) <- c( "chrom", "start.pos", "end.pos", "hets", "het_stat", "homs", "hom_stat", "indiv" ) --- Jeff NewmillerT

Re: [R] facets work in qplot but facet_wrap produces an error in ggplot

Perhaps you had forgotten to use header=TRUE when you read the data in. --- Jeff NewmillerThe . . Go Live... DCN:Basics: ##.#. ##.#. Live Go

Re: [R] Graph with ggplot2.

It is difficult to read your code because the HTML format messes it up, but I think your ggplot function call is missing a parenthesis between fill=Prostate and the + sign. --- Jeff NewmillerThe

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