Re: [R] Is RcppOctave package available for Mac to install?

2015-03-13 Thread David Winsemius
> On Mar 13, 2015, at 11:50 PM, C W wrote: > > Hi everyone, > > When I tried to install RcppOctave package I got the following. >> install.packages("RcppOctave") > --- Please select a CRAN mirror for use in this session --- > > package ‘RcppOctave’ is available as a source package but not as

[R] Is RcppOctave package available for Mac to install?

2015-03-13 Thread C W
Hi everyone, When I tried to install RcppOctave package I got the following. > install.packages("RcppOctave") --- Please select a CRAN mirror for use in this session --- package ‘RcppOctave’ is available as a source package but not as a binary Warning message: package ‘RcppOctave’ is not avai

Re: [R] Extract month and year as one column

2015-03-13 Thread Gabor Grothendieck
On Fri, Mar 13, 2015 at 11:36 AM, Kumsaa wrote: > How could I extract both month and year from a date? I know how to > separately extract both using lubridate package: > > df$month <- month(df$date) > df$year<- year(df$date) > > I wish to extract year and month as one column > >> dput(mydf) > stru

[R] Circos plots by using R (updated OmicCircos package)

2015-03-13 Thread Hu, Ying (NIH/NCI) [E]
Dear R users, OmicCircos is an R package used to generate high-quality circos plots. The package has been updated (the development version) at http://master.bioconductor.org/packages/3.1/bioc/html/OmicCircos.html. In order to use the devel version of Bioconductor, you must install R-devel (ht

Re: [R] textplot() in wordcloud package

2015-03-13 Thread Jim Lemon
Hi Fraser, "textplot" is fairly similar to the "thigmophobe.labels" function in plotrix. I think the problem is that when the user passes an explicit position for the labels with the default "new=TRUE" argument, the "pos" argument is passed to the "plot" function, causing the warning. If the "pos"

Re: [R] Extract month and year as one column

2015-03-13 Thread David Winsemius
On Mar 13, 2015, at 8:36 AM, Kumsaa wrote: > How could I extract both month and year from a date? I know how to > separately extract both using lubridate package: > > df$month <- month(df$date) > df$year<- year(df$date) Use format.Date: # and see ?strptime for more format specifications. > fo

Re: [R] R Help Pops um in Webbrowser | how to dissable

2015-03-13 Thread David Winsemius
On Mar 13, 2015, at 4:42 AM, acrodaniel wrote: > R studio writes that it has a problem with > > .rs.httpdPort() > > when startup > RStudio question are best handled on the web forums established to support that product. They are not on-topic for Rhelp. ## R-help@r-project.org maili

Re: [R] Date extract Year

2015-03-13 Thread archsteve
Ha, sorry for the obtuseness Rolf. New to this. Thanks for your help. -Steve > On Mar 8, 2015, at 9:25 PM, Rolf Turner [via R] > wrote: > > Rolf Turner -- View this message in context: http://r.789695.n4.nabble.com/Date-extract-Year-tp4704295p4704614.html Sent from the R help mailing

[R] Extract month and year as one column

2015-03-13 Thread Kumsaa
How could I extract both month and year from a date? I know how to separately extract both using lubridate package: df$month <- month(df$date) df$year<- year(df$date) I wish to extract year and month as one column > dput(mydf) structure(list(date = structure(c(14975, 14976, 14977, 14978, 14979,

[R] Ancestral state problem (length of phylogenetic and phenotypic data don't match)

2015-03-13 Thread Hannah west
Dear All, I am trying to do an ancestral state reconstruction in R using the package 'ape'. I have tried trimming my tree in BayesTraits and in R itself, and the resulting tree reports as having 573 species tips, which is the same as my dataset. As far as I can tell everything is loading prop

[R] mboost: Proportional odds boosting model - how to specify the offset?

2015-03-13 Thread Nussbaum Madlene
Dear R team The package mboost allows for boosting of proportional odds models. However, I would like to include an offset for every observation. This produces an error - no matter how I put the offset (as response probabilities or as response link). Fitting gamboost-models with offset works

[R] svm plot

2015-03-13 Thread Δέσποινα Καλφακάκου
Hello, as you can imagine, I am new to R. I have a problem plotting the results of my svm classification of microarray data. So, I have a matrix of 30 rows (samples) and 306 columns (significant genes). I transform the matrix to a data frame in order to do the classification. My code is: data<-

[R] R Help Pops um in Webbrowser | how to dissable

2015-03-13 Thread acrodaniel
Hello, i am new in R. When i search for any help in R-Studio. example ?mean a new Webpage opens with the help of mean. I want to see it in R-Studio. It worked until yesterday. I am using Arch bin version. Thanks for you help -- View this message in context: http://r.789695.n4.nabble.com/R

Re: [R] R Help Pops um in Webbrowser | how to dissable

2015-03-13 Thread acrodaniel
R studio writes that it has a problem with .rs.httpdPort() when startup -- View this message in context: http://r.789695.n4.nabble.com/R-Help-Pops-um-in-Webbrowser-how-to-dissable-tp4704603p4704606.html Sent from the R help mailing list archive at Nabble.com. ___

[R] textplot() in wordcloud package

2015-03-13 Thread Fraser D. Neiman
Dear All, The textplot() function in the wordcloud package seem to do a good job with generating non-overlapping labels on a scatter plot. But it throws "warnings" when I try to use the pos= parameter to position the text labels relative to a given x-y point. Here is a simple example: x<-runi

Re: [R] need help on RATQ package

2015-03-13 Thread David Winsemius
On Mar 13, 2015, at 5:11 AM, PIKAL Petr wrote: > Hi > > I did not find any RATQ package. If you mean RTAQ package it was removed from > CRAN > > quote: > Package ‘RTAQ’ was removed from the CRAN repository. Not only that but the first Google hit for a search on RATQ sends you to a page that

Re: [R] graphs

2015-03-13 Thread David Winsemius
On Mar 13, 2015, at 9:27 AM, Mir Salam wrote: > > __Dear all, > > You can see the plot specif curves in the enclosed document. Inclusion of all > plot specif curves in one plot may not be look good and finally it will be > unreadable. I am agree with Petrr and John. This graph is more readab

Re: [R] graphs

2015-03-13 Thread Mir Salam
__Dear all, You can see the plot specif curves in the enclosed document. Inclusion of all plot specif curves in one plot may not be look good and finally it will be unreadable. I am agree with Petrr and John. This graph is more readable. Best regards Salam ___

Re: [R] Course and book announcements on r-help

2015-03-13 Thread John Kane
I have the feeling that this was discussed 3-4 years ago and the overall opinion seems to be that if the course or book was relevant then it was acceptable on an occasional basis. No spamming-type or mass selling posts were. John Kane Kingston ON Canada > -Original Message- > From: wol

Re: [R] graphs

2015-03-13 Thread John Kane
@Petr I agree. I think Mir would get a totally unreadable graph. I occasionally look at some spagetti graphs from climate research, and I find 8 - 12 lines are incomprehensible (I'm not a subject matter expert)' @Mir Is there any logical way to break down the data ? I think Petr is correct in

Re: [R] need help on RATQ package

2015-03-13 Thread PIKAL Petr
Hi I did not find any RATQ package. If you mean RTAQ package it was removed from CRAN quote: Package ‘RTAQ’ was removed from the CRAN repository. Formerly available versions can be obtained from the archive. No clean update received after requests on Nov 2012, Dec 2012, Jan 2013; hence archiv

[R] need help on RATQ package

2015-03-13 Thread Shameem Akhtar
at the time ao installing RATQ packages in my R it is showing an error (package ‘RTAQ’ is not available (for R version 3.1.0) ) can any one tell me which version of R is suitable for this (RATQ) package. [[alternative HTML version deleted]] __ R

Re: [R] graphs

2015-03-13 Thread PIKAL Petr
Hi Your example is not reproducible, but I presume you could use ggplot together with predict. However, I wonder how do you want to distinguish 68 curves in one picture. I would Cheers Petr > -Original Message- > From: R-help [mailto:r-help-boun...@r-project.org] On Behalf Of Mir > Sa

Re: [R] Help with error: arguments imply differing number of rows

2015-03-13 Thread PIKAL Petr
Hi Without further information you probably do not get answers. Everything seems to be same so the only reason can be that the objects seems to be same but they have some inner distinctions, maybe type of variables. Are results of str(your.objects) same in equivalent objects? Cheers Petr >

[R] Course and book announcements on r-help

2015-03-13 Thread Viechtbauer Wolfgang (STAT)
Dear All, Just wondering: Is there any official policy on announcing R-related courses and books on r-help? I didn't find anything on this in the posting guide, but http://www.r-project.org/mail.html#instructions says that r-help is, among other things, for "announcements (not covered by 'R-an

[R] QAIC in glmulti

2015-03-13 Thread kat123
I am trying to run glmulti with the critera QAICc. I have tried running the script below but it does not work. mod1 <- glmulti(RRHOV ~ SNH1000 + W1000 + PSS3000 + PAG1000 + PEL1000 + SR250 + HE250, data = data1, family= poisson, maxsize = 4, level =1, crit = qaicc, glmulti-cvalue = 1.414) Is t