All of this is syntactic sugar. Just because a language does not have
the sintax that you are used (e.g, Perl) does not make it bad/hard to
use. What is the problem if I have to type a couple of extra lines:
f <- function(x) list(a = seq_along(x), b=x*3)
result <- f(1)
r1 <- result$a
r2 <- resul
I agree that global side effects are a bad idea, but ivo started this by
pointing out that it is straightforward to do this in Perl. It might be worth
considering adding this capability to R.
---
Jeff Newmiller
,,,But assigning to the global environment is a bad idea. You're just
asking for trouble -- overwriting without warning something that's
already there.
May I suggest a rule of thumb: When things are difficult or clumsy to
do in R, don't do them.
Of course this is not inviolable, but the OP's requ
An idiom like this would also work.
f <- function(a,b) list( data.frame(a+rnorm(20), b), loess( a ~ b) )
lapply(seq_along(out <- f(1:20, 1:20)), function(i) assign(c("c",
"d")[i], out[[i]], envir = .GlobalEnv))
It is not elegant if you are doing this regularly, but, I think,
functions typically
thanks, everyone. I should have been clearer (as always). I used the
numbers as an example only. I am aware that I can put numbers into
vectors and get nice R syntax. my problem is that I usually want to
return multiple and/or mixed objects, such as multiple data frames. I
should have given as
Michael,
Your suggestion to use sapply solves the problem.Thanks so much for your help
Mauricio
From: R. Michael Weylandt
Cc: "r-help@r-project.org"
Sent: Friday, March 30, 2012 8:33 PM
Subject: Re: [R] How to use access results of gregexpr in data frames
I'd suggest you get a copy of the book that code accompanies: it's not
a trivial question -- this post may also help:
http://tolstoy.newcastle.edu.au/R/help/04/07/0117.html -- once you
read that I believe I told you how to fit a general ARIMA model before
so you should be good to go.
As to your or
> Why is commandArgs()[1] = "/usr/lib64/R/bin/exec/R" and not
> "getopt_test.R" as described by the help (?getopt)?
That used to work but R changed the behavior of the commandArgs()
function a couple of years ago, I guess the orginal author of getopt
didn't update his example then.
This will do t
I think when you assign to dframe$all there's more going on than you
realize: you're actually using a multi-element list as a column of a
data frame which is, while possible, perhaps nonstandard. Perhaps you
want this:
dframe$all <- t(simplify2array(gregexpr("/", dframe[, 1])))
print(dframe)
#
Well, it might take some time to work out a lubridate solution that
works, but how about good old base R?
as.POSIXct(x$datetime)
Michael
On Fri, Mar 30, 2012 at 10:22 AM, Henrik Pärn wrote:
> Dear all,
>
> I wish to create a POSIXct variable from date and time variables using the
> ymd_hm func
You can also take a look at
http://stackoverflow.com/questions/7519790/assign-multiple-new-variables-in-a-single-line-in-r
which has some additional solutions.
On Fri, Mar 30, 2012 at 4:49 PM, Peter Ehlers wrote:
> On 2012-03-30 15:40, ivo welch wrote:
>>
>> Dear R wizards: is there a clean
On Fri, Mar 30, 2012 at 6:40 PM, ivo welch wrote:
> Dear R wizards: is there a clean way to assign to elements in a list?
> what I would like to do, in pseudo R+perl notation is
>
> f <- function(a,b) list(a+b,a-b)
> (c,d) <- f(1,2)
>
> and have c be assigned 1+2 and d be assigned 1-2. right
On 2012-03-30 15:40, ivo welch wrote:
Dear R wizards: is there a clean way to assign to elements in a list?
what I would like to do, in pseudo R+perl notation is
f<- function(a,b) list(a+b,a-b)
(c,d)<- f(1,2)
and have c be assigned 1+2 and d be assigned 1-2. right now, I use the clunky
You don't need temporary variable x
c<-f(1,2)[[1]]
d<-f(1,2)[[2]]
Weidong Gu
On Fri, Mar 30, 2012 at 6:40 PM, ivo welch wrote:
> Dear R wizards: is there a clean way to assign to elements in a list?
> what I would like to do, in pseudo R+perl notation is
>
> f <- function(a,b) list(a+b,a-b)
On Sat, Mar 31, 2012 at 9:05 AM, Bond, Stephen wrote:
> Greetings useRs,
>
> Can anyone provide an example how to use ff to feed a very large data frame
> to glm?
> The data.frame cannot be loaded in R using conventional read.csv as it is too
> big.
>
> glm(...,data=ff.file) ??
>
I shouldn't th
you want to check the ff man page (?ff), there is an example described
there with biglm. b
On 30 March 2012 21:05, Bond, Stephen wrote:
> Greetings useRs,
>
> Can anyone provide an example how to use ff to feed a very large data
> frame to glm?
> The data.frame cannot be loaded in R using conven
Hello,
I'm trying to figure out how to find the index of the second occurrence of "/"
in a string (which happens to represent a date) within a data frame column.
I've used the following code successfully to find the first instance of "/".
dframe <- data.frame(date=c("5/14/2011", "4/7/2011"))
df
Not I.
You really should read the posting guide, because you are not describing your
system or problem in a reproducible way. Some obvious first questions might be
"are you using the latest versions of R, was it a binary distribution, is JGR
up-to-date, are your other loaded packages up-to-date
Hello Greg,
Thanks for your time,
Lets say I know Pearson covariance matrix.
When I use rmvnorm to simulate 9 variables and then dichotomize/categorize
them, I cant retrieve the population covariance matrix.
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Dear R wizards: is there a clean way to assign to elements in a list?
what I would like to do, in pseudo R+perl notation is
f <- function(a,b) list(a+b,a-b)
(c,d) <- f(1,2)
and have c be assigned 1+2 and d be assigned 1-2. right now, I use the clunky
x <- f(1,2)
c <- x[[1]]
d <- x[[2]
Hi all.
Upon attempting to load the 'JGR' package, on a Win32 machine (SP3), a
pop-up message appeared stating that R had encountered a problem and needs
to close. Has anyone else encountered this?
Thanks.
~Caitlin
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Hello everyone,
I run S-Plus 8.1 for development and a Tibco Spotfire 3.1 stat server
currently to serve my client. We are converting to open source and I was
wondering if there is any documentation on converting some S-plus functions
over to R. We do some plotting and basic database manipulatio
If I could add one comment, the above solution leaves NAs if you are not
changing the names of all of the variables (those not present are assigned
NA's). The solution for this is of course:
df1 <-
data.frame(V1=1:3,V2=c(paste(LETTERS[1],LETTERS[1:3],sep='')),stringsAsFactors
= FALSE)
unique(df1$
Hey thanks, that worked. So you're right, I'd like to run it for multiple
values of i. As it's written, I'm doing it in a for loop, as
plotter<-function(i,fram,framvec,obj,form1,form2){
temp.i<-fram[framvec <=(i*.10),]
plot(form1, data=temp.i, xlim=c(0,1500), ylim=c(0,35), main=(i*.10))
mod<-lm(
Am Mittwoch, den 28.03.2012, 14:08 +0200 schrieb Juergen Rose:
> I have the following script (also attached):
>
...
> Ausführung angehalten
>
> This behaviour I don't like at all. Why getopt does not distinguish
> beetween options starting with alt least one hyphen and normal arguments
> starting
Hi,
I would do the following,
library(ggplot2)
require(reshape)
TestData <- structure(list(profile_key = c(1, 1, 1, 1, 1, 2, 2, 2, 2, 2,
2, 3, 3, 3, 3, 3), line = c(1, 1, 2, 2, 2, 1, 1, 1, 1, 2, 2,
1, 1, 1, 1, 1), instance = c(1, 1, 1, 1, 1, 1, 1, 1, 1, 1, 1,
1, 1, 1, 1, 2), drug = structure(c(
On 12-03-30 12:40 PM, Clifton, Abigail J. wrote:
> Hi again!
>
> Thanks very much for the code, it appears to work! Finally, I want
> to extract the coefficients and tried coef(g1), which works.
> However, there only appear to be intercepts/coefficients for 'V22N'
> out of thousands of possibili
Greetings useRs,
Can anyone provide an example how to use ff to feed a very large data frame to
glm?
The data.frame cannot be loaded in R using conventional read.csv as it is too
big.
glm(...,data=ff.file) ??
Thank you
Stephen B
__
R-help@r-project.
Ok, I've modified it as suggested so as to not pass to the global. Thanks
for the suggestions, and the link to the interesting reading.
On Fri, Mar 30, 2012 at 12:26 PM, William Dunlap wrote:
> I think you will be happier in the long run if you use the approach
> Peter suggested. Do not use <<-
Start by reading the Help files,please.
?plot.formula ## and note the data argument
So dispense with the unnecessary complex constructions altogether:
plot( y~x, data = temp.i)
-- Bert
On Fri, Mar 30, 2012 at 12:42 PM, Joshua Wiley wrote:
> Hi Benjamin,
>
> See inline
>
> On Fri, Mar 30, 20
Hi Nicole,
Thank you very much for the code.
I agree with you that the code in the pdf could work just fine. However, maybe
my situation is a little bit different, since I "cbind" three dependent
variables. I think this may cause some problems when pooling. I can not use
MANOVA function beca
Hi Benjamin,
See inline
On Fri, Mar 30, 2012 at 12:31 PM, Benjamin Caldwell
wrote:
> Another question on functions - I have something that looks like
>
> plotter<-function(i){
> temp.i<-rwb[rwb$vector1 <=(i*.10),]
> with(temp.i, plot(vector2, vector3, main=(i*.10),))
> mod<-lm(vector3~vector3-1
Another question on functions - I have something that looks like
plotter<-function(i){
temp.i<-rwb[rwb$vector1 <=(i*.10),]
with(temp.i, plot(vector2, vector3, main=(i*.10),))
mod<-lm(vector3~vector3-1,data=temp.i)
r2<-summary(mod)$adj.r.squared
rsqrd[i]<-r2
legend("bottomright", legend=signif(r2
Thanks all - ended up going with
test<<-test
On Thu, Mar 29, 2012 at 4:40 PM, Peter Langfelder <
peter.langfel...@gmail.com> wrote:
> On Thu, Mar 29, 2012 at 3:49 PM, Benjamin Caldwell
> wrote:
> > Hello,
> >
> > I'm trying to create a vector of r^2 values for using a function which I
> > will
When looking at the histogram distribution of medoids from a cluster
analysis, clara{cluster}, they are close to normally distributed around
zero. The cluster plot, clusplot{cluster}, does not suggest distinct
partitions. How should the histogram distribution of medoids be
interpreted? Can one s
Hi all
I´m trying to analize the role of time since abandonement (continuous variable)
and
biophysical environmental conditions on the recovery of the vegetation trough
succession.
First, I used non-linear least squares with nls function to model the effect of
time on
vegetation attributes.
On 2012-03-30 10:15, Rui Barradas wrote:
Hello,
Bcampbell99 wrote
Hi:
I'm having some difficulty properly subscripting a function to remove
complete NA rows from a R array object. Could someone please suggest how
best
to script this out?
Data structure:
X is an array with 3 dimensions (re
Hi Amy,
You might repost this question to the Bioconductor mailing list:
you'll get more specialized help there. But to answer your questions
as best I can see inline:
On Fri, Mar 30, 2012 at 12:15 PM, Minyue Wang wrote:
> Hi all,
> My name is Amy, I am a masters student in Bioinformatics at Nor
Hello,
Bcampbell99 wrote
>
> Hi:
>
> I'm having some difficulty properly subscripting a function to remove
> complete NA rows from a R array object. Could someone please suggest how
> best
> to script this out?
>
> Data structure:
>
> X is an array with 3 dimensions (replicates, Species, Si
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Dear All,
if I use rpart to built a regression tree and if I study the spatial
autocorrelation of the residuals of regression tree, how I use Moran test
(or other test) on these residuals?
Moran's Test work on lm object, but I have a rpart object.
thanks,
Myriam
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Hi all,
My name is Amy, I am a masters student in Bioinformatics at North Carolina
State University. I am working on a project and I am trying to use the lumi
R package for microarray data analysis. I have shown the sample code here
and have questions about modifying the sample code for my own data
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Dear Partner,
Here is our Direct client requirement which can be filled
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how will you decide P,D & Q in sarima() function using code,can u give me
code
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Hi all,
My name is Amy, I am a masters student in Bioinformatics at North Carolina
State University. I am working on a project and I am trying to use the lumi
R package for microarray data analysis. I have shown the sample code here
and have questions about modifying the sample code for my own data
Thanks for your reply.
I'm trying to use "predictProb.coxph()" function in "peperr" package to
calculate the predicted probability.
Here the particular time, do you mean the total follow-up time for each
subject? Because the predict.coxph() function didn't provide a time parameter
to inp
I wont lie it is for a home exam yes and i know that i need to do a logistic
regression on this data set I have already done one on another data set and
i am just asking how to overcome the problem in R.
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Hi:
I'm having some difficulty properly subscripting a function to remove
complete NA rows from a R array object. Could someone please suggest how
best
to script this out?
Data structure:
X is an array with 3 dimensions (replicates, Species, Sites)
replicates: 1 to 6 but ragged...not all sites
Hello,
I have 8 plots, set up using par(mfrow=c(4,2)). Centered over each of the 4
rows I want a single title (since each row pertains to the same item but the 2
plots have different x & y labels). Is there a way I can do that without
changing the layout? mtext?
Thank you.
Jeff
__
David Winsemius comcast.net> writes:
>
>
> I think you need to understand indexing more than you need to
> understand factors.
>
> incomes [ which(statef == "act") ]
>
> If you want to understand how to programmatically access levels, then
> you only need to follow the "See also" links o
On 30/03/2012 12:47 PM, Jonathan Greenberg wrote:
Follow-up:
r-forge seems to have some weirdnesses with version numbers, and since
this is an incubation site, there are occasions where the version
numbers were put in based on whatever the programmer was using at a
time (e.g. other versions were
Sarah Goslee gmail.com> writes:
>
> Hi Julio,
>
> You can use a factor to index another object just as you'd use any other
> index:
> > incomes[statef == "act"]
> [1] 46 43
> Is there something specific you're trying to accomplish?
>
> Sarah
>
Thanks Sarah! I'm just learning R. Thanks agai
On Mar 30, 2012, at 12:50 PM, Julio Sergio wrote:
I'm trying to figure out about factors, however the on-line
documentation is
rather sparse. I guess, factors are intended for grouping arrays
members into
categories, which R names "Levels". And so we have:
* state <- c("tas", "sa", "qld
Hi Julio,
You can use a factor to index another object just as you'd use any other index:
> incomes[statef == "act"]
[1] 46 43
It looks like you're using the R intro guide, but there's a lot of
other material available. Try this one for starters:
http://www.stat.berkeley.edu/classes/s133/factors.
Sam,
As you've probably seen, all the MDSplot() function does is feed 1 - proximity
to the cmdscale() function. Some suggestion and clarification:
1. If all you want is the proximity matrix, you can run randomForest() with
keep.forest=FALSE to save memory. You will likely want to run somewhat
I'm trying to figure out about factors, however the on-line documentation is
rather sparse. I guess, factors are intended for grouping arrays members into
categories, which R names "Levels". And so we have:
* state <- c("tas", "sa", "qld", "nsw", "nsw", "nt", "wa", "wa",
"
Follow-up:
r-forge seems to have some weirdnesses with version numbers, and since
this is an incubation site, there are occasions where the version
numbers were put in based on whatever the programmer was using at a
time (e.g. other versions were simply not tested, so they erred on the
safe side).
On 30/03/2012 12:05 PM, Jonathan Greenberg wrote:
R-helpers:
I'm trying to install a package from r-forge, and I'm wondering if
there is a way to force R to install a package, even if the package
"requires" a certain version of R (short of modifying the DESCRIPTION
file)? Cheers!
You don't gi
Hi list,
I have some trouble to setup RMySQL correctly to work with german umlaute:
> library(RMySQL)
Loading required package: DBI
> pg <- dbDriver("MySQL")
> con <- dbConnect(pg, username="dummy", host="localhost", password="",
dbname="ga1prosp")
> dbGetQuery(con, statement="SELECT * FROM Körp
R-helpers:
I'm trying to install a package from r-forge, and I'm wondering if
there is a way to force R to install a package, even if the package
"requires" a certain version of R (short of modifying the DESCRIPTION
file)? Cheers!
--j
--
Jonathan A. Greenberg, PhD
Assistant Professor
Departmen
I don't know FPE is but in the case of the Akiaike Information Criterion,
the actual value
depends on whether you include constants and multipliers in ( derivation of
) the formula. It doesn't matter in that case because you're only
comparing AIC's ( and the lower the better ).
Since, I don't what
Le vendredi 30 mars 2012 à 11:39 -0400, David Winsemius a écrit :
> On Mar 30, 2012, at 3:38 AM, Milan Bouchet-Valat wrote:
>
> > Le jeudi 29 mars 2012 à 09:49 -0500, Yongsuhk Jung a écrit :
> >> Dear Members of the R-Help,
> >>
> >>
> >>
> >> While using a R function - 'aggregate' that you develo
HI Nicole,
Homework? No, it is a part of analysis for my paper. Any idea?
ya
At 2012-03-30 23:32:21,"Nicole Marie Ford" wrote:
>ya,
>
>is this homework?
>
>
>- Original Message -
>From: "ya"
>To: r-help@r-project.org
>Sent: Friday, March 30, 2012 9:04:59 AM
>Subject: [R] pool
On Mar 30, 2012, at 3:38 AM, Milan Bouchet-Valat wrote:
Le jeudi 29 mars 2012 à 09:49 -0500, Yongsuhk Jung a écrit :
Dear Members of the R-Help,
While using a R function - 'aggregate' that you developed, I become
to have
a question.
In that function,
aggregate(x, by, FUN, ..., simpl
Partly this depends on what you mean by a covariance between
categorical variables (and binary) and what is a covariance between a
categorical and a continuous variable?
On Thu, Mar 29, 2012 at 12:31 PM, Burak Aydin wrote:
> Hi,
> I d like to simulate 9 variables; 3 binary, 3 categorical and 3 co
On Mar 30, 2012, at 8:12 AM, carlb1 wrote:
Hi
I am trying to do a logistic regression on a small data file yet
when i get
up to plotting the first set of graphs instead of 4 I only get one
graph,
and some error messages. Yet it still looks like the program is doing
something due to the "bl
Hello All,
Recently developed the code below for graphing patterns of chemotherapy
administration. As someone just starting to use R in their work, I managed to
figure out some parts of the code but needed help with others.
setwd("N:/Regimen Coding/0906/Plots Test")
getwd()
TestData <- struct
I nominate the following paragraph for the fortunes package:
"The basic issue appears to be that glht is not smart enough to deal
with degrees of freedom so it uses an asymptotic z-test instead of a
t-test. Infinite df, basically, and since 4 is a pretty poor
approximation of infinity, you get you
Dear all,
I wish to create a POSIXct variable from date and time variables using the
ymd_hm function in package lubridate. In some cases data for time is missing,
which causes a problem for ymd_hm. I wish to find a smooth way to handle this.
# Some example data:
x <- data.frame(date = c("2011
Hi everyone,
Does anyone here has experience using MICE to impute missing value? I am
having problem to pool the imputed dataset for a MANOVA test, could you
give me some advice please?
Here is my code:
> library(mice)
>
grd3dat=subset(paper2,Control==1&Grade_1==3,select=c(Boy,BVCategoryT1,re
Yes sir,i m using another's code,i will acknowledge them in my paper
publication when my project completes.
but can u tell me, how to decide P,D & Q values in sarima() function using
code
its difficult to decide by visually,i have 4500 such time series
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Okay thanks to your help I figured it out and stuck the code in a function:
df.sample.exIDs = function(main.df, sample1.df, n, ID1.name, ID2.name) {
main.ID1.notin.ID2 = main.df[!main.df[,ID1.name] %in%
sample1.df[,ID2.name],]
sample2.df = main.ID1.notin.ID2[sample(nrow(main.ID1.notin.ID2), si
Hello,
first of all I have found lots of different versions of the FPE which have
given me different results. I was wondering if there was an explicit command
in R to compute the FPE of a model. Thank you in advance,
Jonny
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Dr. Petris,
Thank you so much for your help. I appreciate it. I am still learning R!
Thanks
Arun
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You can check to see if you have authorization to update those files by
right-clicking on the R shortcut icon (on your desktop or in Windows | All
Programs | R | R2.14.1 (your version may be different). In the menu that
opens, if there is an option to Run as Administrator (near the top on my
system
On Mar 30, 2012, at 8:17 AM, inkhorn wrote:
Okay, here's some sample code:
ID = c(1,2,3,"A1",5,6,"A2",8,9,"A3")
fakedata = rnorm(10, 5, .5)
main.df = data.frame(ID,fakedata)
results for my data frame:
main.df
ID fakedata
1 1 5.024332
2 2 4.752943
3 3 5.408618
4 A1
-- begin included message ---
Because Cox proportional hazards model didn't give the baseline hazard
function, how to calculate the predictive probability for each test
sample at a special time point,such as 5-year or 10-year ?
In survival package, predict.coxph() function gives three different
wrote:
>
>
> Dear List,
>
> If I got a Cox model based on training set, then how should I
calculate the Cox log partial likelihood for the test data?
> Actually I am trying to calculate the deviance on test dataset to
evaluate the performance of prediction model, the equation is as
follows: D
If you read it in as a dataframe, then you can use 'split' to create the
subsets by PolyNam and then use 'lapply' to the result of 'split' to plot
it:
lapply(split(yourDF, yourDF$PolyNam), function(.poly){
plot(.poly$Date, .poly$Total)
})
On Fri, Mar 30, 2012 at 5:16 AM, TwistedSkies wrote:
Okay, here's some sample code:
ID = c(1,2,3,"A1",5,6,"A2",8,9,"A3")
fakedata = rnorm(10, 5, .5)
main.df = data.frame(ID,fakedata)
results for my data frame:
> main.df
ID fakedata
1 1 5.024332
2 2 4.752943
3 3 5.408618
4 A1 5.362838
5 55.158660
6 64.658235
7
Hello everyone,
I am looking into time series data compression at the moment.
The idea is to fit a curve on a time series of n points so that the maximum
deviation on any of the points is not greater than a given
threshold. In other words, none of the values that the curve takes at the
points
Hi Guys,
I am trying to create 20 indivudual line graphs that will be updated on a
weekly bases. I have managed to read in my data from SQL and defined my
loop. I am having difficulty in plotting the data and I think it may have
something to do with the way my data has been read in and maybe I nee
Hi
I am trying to do a logistic regression on a small data file yet when i get
up to plotting the first set of graphs instead of 4 I only get one graph,
and some error messages. Yet it still looks like the program is doing
something due to the "blue wheel" of the mouse. Below is the script copied
At 19:34 29/03/2012, JimeBoHe wrote:
I am a new user in R, so I am sorry if this is a basic question but I am kind
of lost here and I really would appreciatte your help.
Dear Jimena
Comments in-line
I have behavioral information of sea lions and I've done a binomial
Generalized Linear model
The build system rolled up R-2.15.0.tar.gz (codename "Easter Beagle") at 9:00
this morning. This is the first release of the 2.15 series and contains several
new features and changes; see the list below for details.
You can get the source code from
http://cran.r-project.org/src/base/R-2/R-2.1
Thank you so much, Peter and Andrija :)
On Thu, Mar 29, 2012 at 1:44 PM, peter dalgaard wrote:
> %in% is your friend
> mysub <- subset(df, type %in% type_list, select=c(name,type))
> or
> mysub <- df[df$type %in% type_list, c("name","type")]
> The latter is slightly safer if you can't be sure tha
yes elai, that's what I want!
thank you for support
maxbre
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Le jeudi 29 mars 2012 à 09:49 -0500, Yongsuhk Jung a écrit :
> Dear Members of the R-Help,
>
>
>
> While using a R function - 'aggregate' that you developed, I become to have
> a question.
>
> In that function,
>
>
>
> > aggregate(x, by, FUN, ..., simplify = TRUE)
>
>
>
> I was wondering
Indeed, I meant to transfer a dataframe. The dump method followed by
source(encoding = "cp1252") worked fine.
Thank you very much. FB
Am 28.03.2012 um 14:52 schrieb Prof Brian Ripley:
> On 28/03/2012 13:27, David Winsemius wrote:
>> On a Mac running with a US locale, when I first type -u (in
>>
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