[R] Trouble with tibbles

rvest_0.3.2 assertthat_0.2.0 mnormt_1.5-5 [37] colorspace_1.3-2 stringi_1.2.3lazyeval_0.2.1 munsell_0.5.0 [41] broom_0.4.4 crayon_1.3.4 -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Hospital Assistant Pro

Re: [R] Trouble building R 3.5.0 under Ubuntu 18.04

'/home/steve/src/R/R-3.5.0/src/main' Makefile:135: recipe for target 'R' failed How does one set the -fPIC flag? I have never had trouble compiling under Mint, which is based on Ubuntu. Thanks! Steve -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) L

Re: [R] Converting a list to a data frame

;- do.call(rbind, lapply(names(x), function(z) ata.frame(type=z, x[[z]]))) #Error in ata.frame(type = z, dat[[z]]) : still cannot find function "ata.frame"? *William H. Poling, Ph.D.* *From:* R-help [mailto:r-help-boun...@r-project.org] *On Behalf Of *Huzefa Khalil *Sent:* Wednesday,

Re: [R] Converting a list to a data frame

A = data.frame(x = 1:2, y = 3:4), B = data.frame(x = 5:6, y = 7:8) ) dplyr::bind_rows(l, .id = "type") #> type x y #> 1A 1 3 #> 2A 2 4 #> 3B 5 7 #> 4B 6 8 This also has the advantage of returning a data frame when the inputs are data frames. Hadley

Re: [R] Converting a list to a data frame

tion of Bill Dunlap and David Carlson is beautifully elegant. Thanks again, Kevin -Original Message- From: R-help <r-help-boun...@r-project.org> On Behalf Of David L Carlson Sent: Wednesday, May 2, 2018 3:51 PM To: William Dunlap <wdun...@tibco.com>; Kevin E. Thorpe <ke

[R] Converting a list to a data frame

together and the element name becomes a new variable. For example, I would like to turn the list above into a data frame that looks like this: data.frame(type=c("A","A","B","B"),x=c(1:2,5:6),y=c(3:4,7:8)) Appreciate any pointers. Kevin -- Kevin E. Thorp

[R] Package ddalpha is not building for me in R 3.5.0

ENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base loaded via a namespace (and not attached): [1] compiler_3.5.0 tools_3.5.0tcltk_3.5.0 -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC

Re: [R] unable to move temporary installation of package

running). Thanks all for the advice! Paul -Original Message- From: Paul Lantos Sent: Tuesday, March 27, 2018 8:35 PM To: Kevin E. Thorpe <kevin.tho...@utoronto.ca>; Jeff Newmiller <jdnew...@dcn.davis.ca.us> Cc: r-help@r-project.org Subject: RE: [R] unable to move temporary

Re: [R] unable to move temporary installation of package

--- Jeff NewmillerThe . . Go Live... DCN:<jdnew...@dcn.davis.ca.us>Basics: ##.#. ##.#. Live Go... Live: OO#.. Dead: OO#.. Playing Research Engin

[R] Unexpected behaviour in rms::lrtest

0-8 [31] latticeExtra_0.6-28 magrittr_1.5codetools_0.2-15 [34] MASS_7.3-48 scales_0.5.0backports_1.1.2 [37] htmltools_0.3.6 splines_3.4.3 colorspace_1.3-2 [40] quantreg_5.34 sandwich_2.4-0 stringi_1.1.6 [43] acepack_1.4.1 lazyeval_0.2.1 munsell_0.4.3 [46] zoo_1

Re: [R] Cox Regression : Spline Coefficient Interpretation?

TION), nonlin 1747.1295 3.05 <0.0002> Iterations: 8 outer, 19 Newton-Raphson> Theta= 0.991 > Degrees of freedom for terms= 4 > Likelihood ratio test=2136 on 4.05 df, p=0 n= 3390429 > * Thanks, KS -- Kevin E. Thorpe Head of Biostatistics, Applied Health

Re: [R] Converting SAS Code

-contained, reproducible code. --- This email has been checked for viruses by AVG. http://www.avg.com -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Hospital Assistant Professor, Dalla Lana School of Public Health

[R] Reversing table()

I am wondering if there is a way to undo the results of table(). For example if you had a table that looked like the result of table(x, y) or table(x, y, z) is there a simple/elegant way to reverse the process to get the "original" x, y and z vectors? Thanks, Kevin -- Kevin E. T

Re: [R] rms::latex.anova broken?

correctly. Kevin On 02/07/2017 02:23 PM, Kevin E. Thorpe wrote: I am re-running some logistic regression analyses using lrm from the rms package but latex(anova(...)) appears to be broken on my system. Here is some anova() output followed by the latex() error for two models since the error c

[R] rms::latex.anova broken?

.5 htmltools_0.3.5 [34] splines_3.2.3 assertthat_0.1 colorspace_1.3-2 [37] quantreg_5.29 sandwich_2.3-4 stringi_1.1.2 [40] acepack_1.4.1 lazyeval_0.2.0 munsell_0.4.3 [43] zoo_1.7-14 -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Sh

[R] Converting a list to a data frame

nts the simple rbind works but I would like a general solution for arbitrary length lists. Hopefully that is clear. Kevin -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Hospital Assistant Professor, Dalla Lana Sch

[R] Error installing packages

es: [1] Formula_1.2-1 survival_2.39-4 lattice_0.20-33 loaded via a namespace (and not attached): [1] Matrix_1.2-6 tools_3.3.1 gtable_0.2.0 splines_3.3.1 grid_3.3.1 > -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Micha

[R] Multistate survival models

. It did not give an error and produced a result but I don't know if it did a competing risk analysis or not. Thanks. -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Hospital Assistant Professor, Dalla Lana School

Re: [R] factor variables in logistic regression

a factor outcome but if not, you would need to re-code it to 0/1. Kevin -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Hospital Assistant Professor, Dalla Lana School of Public Health University of Toronto email

Re: [R] R-help mailing list activity / R-not-help?

st where, as in a Monty Python skit, people could be directed there to be insulted and all these unhelpful replies could be sent. A milder alternative is to encourage some R-help subscribers to click the "Don't send" or "Save" button and think better of their replies. -

Re: [R] package broom

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. -- Kevin E. Thorpe Head of Biostatistics, Applied Health Re

Re: [R] Correct notation for functions, packages when using LaTex

to Courier) so that's what I follow. -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax

Re: [R] Issues with loading csv file

your CSV file is. There is a menu option for this. Kevin -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca

[R] Randomly interleaving data frames while preserving order

I hope what I'm trying to accomplish makes sense. Maybe I'm missing something obvious, but I really have no idea at the moment how to achieve this elegantly. Since I need to simulate many trial recruitments it needs to be general and compact. I appreciate any advice. Kevin -- Kevin E. Thorpe

Re: [R] Randomly interleaving data frames while preserving order

On 03/31/2015 01:44 PM, Duncan Murdoch wrote: On 31/03/2015 1:05 PM, Kevin E. Thorpe wrote: Hello. I am trying to simulate recruitment in a randomized trial. Suppose I have three streams (strata) of patients represented by these data frames. df1 - data.frame(strat=rep(1,10),id=1:10,pid=1001

Re: [R] Use of R for Hypothesis Testing

and ANOVA? -- Thank you Sike Li (Lydia) [[alternative HTML version deleted]] -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public Health University of Toronto email

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

Whitespace is meaningless, unless it isn't. Some parsing ambiguities are resolved by considering whitespace around operators. See and despair: x-y (assignment) is parsed differently than x -y (comparison)! -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka

Re: [R] Injecting a column of characters to a matrix of numerics

-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. -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka

[R] R for Android

commonly used platforms. If chromebooks and android devices get into greater use, it would be cool if R were available. Kevin -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School

Re: [R] R for Android

Thanks. I guess I could have searched for that. Apologies. I'll have to try it on my tablet. Kevin On 05/08/2014 11:57 AM, Jeremy Miles wrote: It exists: https://play.google.com/store/apps/details?id=com.appsopensource.R No graphics. Jeremy On 8 May 2014 05:44, Kevin E. Thorpe

Re: [R] 'rms' package error

ratio estimates from that model with a little bit of calculation (e.g. exp(-beta/scale)). -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public Health University

Re: [R] Syntax for order()

) : object 'val' not found dat1[order(dat1[,2]), ] # Works just fine. John Kane Kingston ON Canada I don't think the behaviour has changed. I bet dat1[order(dat1$val), ] works just fine. -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute

Re: [R] A 'good' way to build a matrix from a sequence of integers?

]] __ R-help@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. -- Kevin E. Thorpe

Re: [R] Memory limit on Linux?

On 08/13/2013 03:06 PM, Stackpole, Chris wrote: From: Kevin E. Thorpe [mailto:kevin.tho...@utoronto.ca] Sent: Monday, August 12, 2013 11:00 AM Subject: Re: [R] Memory limit on Linux? What does ulimit -a report on both of these machines? Greetings, Sorry for the delay. Other fires demanded

Re: [R] Memory limit on Linux?

vs CentOS thing, but that seems very strange to me. 2) When I compile from source to test this, is there a specific option I should pass to ensure max usage? Thank you. Chris Stackpole What does ulimit -a report on both of these machines? -- Kevin E. Thorpe Head of Biostatistics, Applied

Re: [R] help

What do you mean it doesn't run? Is there an error message? What is it? Also, you do not need to put RX in strata() in the survfit() function. -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor

Re: [R] Strange graphical pattern when using hist() function

at the ?hist to understand how the bins are constructed. -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca

Re: [R] t-statistic for independent samples

your simulations again with variance ratios exceeding 2 and see what happens. -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public Health University of Toronto email

Re: [R] update.packages(checkBuilt = TRUE) fails in updating rpanel_1.1-1 due to missing package BWidget

environment. -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016

Re: [R] Excuse me

of row.names=false when we output csv data. But there exists that parameter in R help. Hoping for your reply! Best regards! B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B B Li Nan -- Kevin E. Thorpe

Re: [R] How to get the t-stat for arima()?

On 03/20/2013 03:49 AM, Prof Brian Ripley wrote: If things are not readily available in R it is always good to pause and reflect if there might be a good reason. I nominate this as a fortune candidate. -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka

Re: [R] On p-values presented in the summary of Linear Models

-help@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. -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre

Re: [R] Relative Risk in logistic regression

/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Kevin E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public Health University of Toronto email

Re: [R] Relative Risk in logistic regression

always use that myself, but if you use the log link, you get RR. As for why you would, I would suggest it's because physicians think they understand a RR better than and OR. Kevin E. Thorpe kevin.tho...@utoronto.ca 1/30/2013 11:14 AM On 01/30/2013 09:02 AM, nalluri pratap wrote: Relative risk

Re: [R] Relative Risk in logistic regression

On 01/30/2013 11:26 AM, John Sorkin wrote: If you use a log link, you are not, I believe, performing a logistic regression! I guess strictly speaking, that is true. I was being a little sloppy in terminology. Kevin E. Thorpe kevin.tho...@utoronto.ca 1/30/2013 11:22 AM On 01/30/2013 11

Re: [R] how to suppress the intercept in an lm()-like formula method?

E. Thorpe Head of Biostatistics, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016

Re: [R] 1-KM and Cumulative incidence

. -- Kevin E. Thorpe Biostatistician/Trialist, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016

Re: [R] linux

will usually need to run make install as root, unless you modify the installation location. One reason I do this is, that I figure if my system has the tools to compile R, I likely won't have concerns about installing packages that require some compilation as well. Kevin -- Kevin E. Thorpe Biostatistician

Re: [R] Loading the stupid dataset--help!!!

there is a simple answer to this. Thanks. -- Kevin E. Thorpe Biostatistician/Trialist, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax

Re: [R] Finding the median

= element x in terms of n (say (n + 1)/2 or whatever it would be) if there is an even amount of elements, or x in terms of n (with a different way of saying how many n) if there is an odd amount of elements? Much appreciated -- Kevin E. Thorpe Biostatistician/Trialist, Applied Health Research

Re: [R] Multiple Correspondence Analysis

it a try. Attached you are the data-set Thank you Best -- Kevin E. Thorpe Biostatistician/Trialist, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho

Re: [R] R help

guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. -- Kevin E. Thorpe Biostatistician/Trialist, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public

Re: [R] net classification improvement?

2008;27:157-172 -- Kevin E. Thorpe Biostatistician/Trialist, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax

Re: [R] net classification improvement?

. Evaluating the added predictive ability of a new marker: from area under the ROC curve to reclassification and beyond. Stat Med 2008;27:157-172 -- Kevin E. Thorpe Biostatistician/Trialist, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant

Re: [R] net classification improvement?

that does this will also work on binary data. Thanks Pencina MJ, D'Agostino RB Sr, D'Agostino RB Jr, Vasan RS. Evaluating the added predictive ability of a new marker: from area under the ROC curve to reclassification and beyond. Stat Med 2008;27:157-172 -- Kevin E. Thorpe Biostatistician

Re: [R] mgcv 1.7-12 crashes R

] Matrix_1.0-2 grid_2.14.0lattice_0.20-0 nlme_3.1-102 -- Kevin E. Thorpe Biostatistician/Trialist, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca

Re: [R] Weird Excel Time Format

experiences with dates in excel, especially when multiple computers are involved. When someone has data in excel, I now require them to make the csv file on their system and manually verify the dates but opening the file in notepad. -- Kevin E. Thorpe Biostatistician/Trialist, Applied Health

Re: [R] avoiding the sample in built function

. Can someone give me a hint? Thanks very much! Bye, sarah The only reason I can think of you wanting to avoid sample() is because this is homework and the list is not for homework. If I have misjudged the intent of your post, please forgive me. -- Kevin E. Thorpe Biostatistician/Trialist

Re: [R] oversampling code

/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. -- Kevin E. Thorpe Biostatistician/Trialist, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St

Re: [R] SPlus to R

the code in a file called 'whatever.R'. 2. Start R, and do source(whatever.R). That defines the functions. do ls() and you should see them. 3. Call one of the functions: sshc(100,10) I'd call that, in R terms, calling the sshc function rather than running anything. Barry -- Kevin E. Thorpe

Re: [R] Meta-analysis of test statistics in metafor package?

the MAd package may have what you are looking for. It can call metafor for you. Kevin -- Kevin E. Thorpe Biostatistician/Trialist, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public Health University of Toronto

Re: [R] X11 problem

not require the headers. I don't use Ubuntu, so I don't know what the name of packages you need for the headers. Typically the packages have the devel versions separate, you you need those. -- Kevin E. Thorpe Biostatistician/Trialist, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge

Re: [R] X11 problem

versions separate, you you need those. -- Kevin E. Thorpe Biostatistician/Trialist, Applied Health Research Centre (AHRC) Li Ka Shing Knowledge Institute of St. Michael's Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel

Re: [R] assign using =

getting used to = is not a good idea? Or is it? Thanks ahead, Berry As a top-level expression, it probably doesn't matter too much. I always use - myself. Here is an example where = does not equal - print(fit - lm(...)) is very different from print(fit = lm(...)). -- Kevin E. Thorpe

Re: [R] Merge matrix

/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. -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public

Re: [R] Sweave with pdf(): how to remove mention null device

: for(i in 1:1){ pdf() plot(runif()) dev.off() } so there is no track of the mention null device, and my sweave pdf looks better. Any idea of a more elegant solution? Thanks!! -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor

Re: [R] (OT) Change of email address

. -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016 __ R-help@r-project.org mailing

Re: [R] reshape is re-ordering my variables

, 2010 at 12:01 PM, Kevin E. Thorpe kevin.tho...@utoronto.ca mailto:kevin.tho...@utoronto.ca wrote: Is it an undocumented (at least I missed it if it's documented) feature of the reshape function to do numeric variables followed by character? I ask because that seems to be the case below

[R] reshape is re-ordering my variables

=en_US LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base loaded via a namespace (and not attached): [1] tools_2.11.1 -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School

Re: [R] survfit question

(surv.all) I would really appreciate any assistance. Thank you. Regards, Andre -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax

Re: [R] ESS question. How to get rid of ess-smart-underscore?

W Eryk Wolski wrote: Hi, ESS replaces _ by -. How can I switch off this feature? I need to be able to type the underscore Thanks Eryk Pressing the underscore a second time gives you the underscore. -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant

Re: [R] Help installation lme4a,

had to. Kevin -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016 __ R-help@r

Re: [R] Sweave: The opposite of tangle

-chunk). Thanks, Stefan This is untested, but does Sweave(file.rnw, eval=FASLE) do what you want? -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel

Re: [R] Sweave: The opposite of tangle

Kevin E. Thorpe wrote: stefan.d...@gmail.com wrote: Hi, I am using Sweave to write an article. If I want to convert the *.rnw to a *.tex file I have to run Sweave which might take a long time. Is there away to get a tex-file as result without (evaluating) the R-chunks, i.e. the opposite

Re: [R] Latex and r

in the rms package that talks about preview difficulties on MAC. -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016

Re: [R] ICD9 codes

, Vishwanath Sindagi wrote: Hello: I am working on getting some statistics related to clinical trials and stuff. I have to work with ICD9 codes. Is anyone aware of any R method that deals with ICD9 codes verification and manipulation. Thanks Vishwanath -- Kevin E. Thorpe Biostatistician/Trialist

Re: [R] R eat my data

... Barry -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016 __ R-help@r

[R] BRugs under Linux?

that installed also, but until I become a bit more familiar with this software I'm starting from BUGS. Kevin -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel

Re: [R] sample size for survival curves

at the average length of follow-up time anticipated in the study. Kevin -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016

Re: [R] 1 - Survival Plot

! In the help file for plot.survfit you can read about the fun argument. fun=event does what you want. -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel

Re: [R] R on Linux - a primer

a feeling for a particular distribution without installing anything. -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016

Re: [R] Help on getting help from manuals

example that illustrates your problem is often very useful in helping you solve the problem without posting a question. I hope this helps. -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University of Toronto email

Re: [R] Deltas or changes

ManInMoon wrote: Hi, I am new to R. What does a negative amount in an index do? i.e. x[-lenght[x]] Why don't you try it and see for yourself? -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University

Re: [R] Deltas or changes

March 2010 20:19, Kevin E. Thorpe [via R] ml-node+1587986-1699461774-180...@n4.nabble.comml-node%2b1587986-1699461774-180...@n4.nabble.com wrote: ManInMoon wrote: Hi, I am new to R. What does a negative amount in an index do? i.e. x[-lenght[x]] Why don't you try

Re: [R] how to make R plot under Linux

X11cairo In addition: Warning message: In function (display = , width, height, pointsize, gamma, bg, : unable to open connection to X11 display '' Would you give some clues what is going on? thanks Did you start ssh with the -X switch? -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge

Re: [R] how to make R plot under Linux

be an enable X11 forwarding (or something similar) option in your ssh client application. You should look e.g. in connection settings. Kind regards, Kimmo Agree. Sounds like you are using a client on Windows. Also, Vojtech Zeisek's reply is pertinent too. -- Kevin E. Thorpe Biostatistician

Re: [R] Fonts in X11(type=Xlib): Was: What font exactly is tkrplot looking for

Kevin E. Thorpe wrote: Hello. I am getting an error thrown from tkrplot. It is X11 font -adobe-helvetica-%s-%s-*-*-%d-*-*-*-*-*-*-*, face 1 at size 12 could not be loaded sessionInfo() R version 2.10.1 Patched (2009-12-29 r50852) i686-pc-linux-gnu locale: [1] LC_CTYPE=en_US

[R] What font exactly is tkrplot looking for

version? I'm pretty sure I have the necessary fonts. I just may need to tell X where they are, so I'm wondering exactly which font(s) are being requested. Thanks. -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health

[R] An R vs. SAS Discrepancy: How do I determine which is correct?

(and not attached): [1] cluster_1.12.0 grid_2.8.0 -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016

Re: [R] An R vs. SAS Discrepancy: How do I determine which is correct?

. Kevin E. Thorpe wrote: I was messing around with some data in R and SAS (the reason is unimportant) fitting a multiple linear regression and got a curious discrepancy. The data set is too big to post, but if someone wants it, I can send it. So, here are the (partial) results: From R

Re: [R] From R to LaTeX to pdf?

this exists in MiKTeX) command builds a pdf file. Kevin Best regards, Joel -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax

[R] Collapse factor levels

Hopefully this makes sense. Thanks, Kevin -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016

Re: [R] Collapse factor levels

Peter Dalgaard wrote: Kevin E. Thorpe wrote: I'm sure this is simple enough, but an R site search on my subject terms did suggest a solution. I have a numeric vector with many values that I wish to create a factor from having only a few levels. Here is a toy example. x - 1:10 x - factor

Re: [R] Simple question, I think

using, or do I need to have an additional line sciach$dummyba[sciach$ba==1] - 1 Thanks in advance. David Try sciach$dummyba - ifelse(sciach$ba==0,2,1) -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health

Re: [R] Help me...!!!

of this function: f(x)=(x-3)^4 with the Newton method. 4.) Define a function that is able to calculate the geometric mean of a seriation: Sorry for all these questions... Thanks a lot!!!... -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge

Re: [R] Call R from Perl

BATCH regressExpr.spl temp` work? -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.6057

Re: [R] Call R from Perl

Daniel Fernandez wrote: I'm not sure but my guess is that part isn't working... is that the way to call R from perl? It's the way I would call R in batch from the command line. In your call you are missing the CMD part. Sent from my iPhone On May 6, 2009, at 8:09 AM, Kevin E. Thorpe

Re: [R] Difference between gam() and loess().

to the robustness of the estimates. I would think that could also account for tail departures especially. I don't gave the gam package installed, so can't test these myself at the moment. - Original Message - From: Kevin E. Thorpe kevin.tho...@utoronto.ca Date: Thursday, March 19, 2009 8:23 pm

Re: [R] Difference between gam() and loess().

Kevin E. Thorpe wrote: Ravi Varadhan wrote: Good try, Kevin. But that doesn't seem to do it. set.seed(123) x - sort(runif(100)) y - sin(4*pi*x) + rnorm(100, sd=0.2) ans.lo2 - loess(y ~ x, degree=2, span=0.75) ans.gam2 - gam(y ~ lo(x, degree=2, span=0.75)) summary(ans.lo2$fitted - ans.gam2

Re: [R] Difference between gam() and loess().

,span=0.75,degree=2)) and see if that helps. Kevin -- Kevin E. Thorpe Biostatistician/Trialist, Knowledge Translation Program Assistant Professor, Dalla Lana School of Public Health University of Toronto email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.6057

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