Hi Ben
Thanks for your answer
I have already tried this, as well as
x <- as.POSIXct(strptime("2002-02-02 02:02", "%Y-%m-%d %H:%M"))
It works! But it does not fix it widely for all tests used during the
"make check" step at compile time. Unless I patch all of them.
There is something with l
Hi
Put geom point call to the end of the commands
p<-ggplot(q3[as.character(q3$D)%in%c("D1","D2"),],aes(x=t,y=b.mean,group=D,col=D,fill=D))
p+ geom_line() +
geom_errorbar(width=.2,aes(ymin=b.mean-b.se,ymax=b.mean+b.se)) +
scale_shape_manual(values = c(16,21)) +
scale_fill_manual(values=c("
Yes. "p" is not "P" .
Re-read the "value" section of the ?rcorr if this is not clear.
-- Bert
Bert Gunter
"The trouble with having an open mind is that people keep coming along
and sticking things into it."
-- Opus (aka Berkeley Breathed in his "Bloom County" comic strip )
On Wed, Apr 5, 201
Dear List
I am fitting some GAM models using the package mgcv. When plotting the
response curves of the individual predictors using gam.plot I get a dotted
line of the confidence interval around the fitted line. Does anybody know a
way to make these as grey area around the fitted lined instead of t
David:
If I may, I was successful in writing csv files for rcorr, n, but not
pvalue, which is empty.
I set digits=5, thinking the small numbers might not show with default
setting.
Here's the code I used. Do you see a bug?
Thanks. Bruce
Y <- rcorr(as.matrix(X))
digits=5
write.csv(Y$p, file = "
Hi Ruchika,
Maybe the hdeco package will help.
Jim
On Wed, Apr 5, 2017 at 2:28 PM, Ruchika Salwan
wrote:
> Hey,
>
> Is there any package in R that handles graph decomposition? A package
> created specifically for flat/hierarchical decomposition of graphs.
>
> Thanks,
>
> [[alternative H
Thanks a lot.
On Wed, Apr 5, 2017 at 10:23 PM, Jeff Newmiller
wrote:
> There is no conclusively client-free solution, which is why it is not in the
> Posting Guide.
>
> However, as a general rule, start with a fresh email to start a thread, and
> reply-to-all to the message you want to reply to
Thanks, David.
__
Bruce Ratner PhD
> On Apr 5, 2017, at 5:49 PM, David L Carlson wrote:
>
> Data files is pretty vague. If you save the output of a function such as
> rcorr(), you can extract any of the parts you need. Step 1 is to read the
> documentation:
>
> ?rcorr
>
> Und
Hi Davide,
The error message is probably due to a zero length dimension in:
W[,ind.positives]
I would look at W (data frame?) to see where this might occur. That
is, does W have a set of proteins with _no_ annotations? Perhaps
manually removing that set will get the function running.
Jim
On We
Data files is pretty vague. If you save the output of a function such as
rcorr(), you can extract any of the parts you need. Step 1 is to read the
documentation:
?rcorr
Under the section labeled "Value" you will see that rcorr() returns a list with
3 matrices named r, n, and P:
> Y <- rcorr(a
Don,
Thank you for your reply. I found no problems in the perl script, but I
found that I had inadvertently swapped file names in my call to system("
script.pl file1 file2") works as expected system(script.pl file2 file1)
produces the output that formed my original query.
Thanks so much, and I le
Hi R'ers:
This code produces: 3x3 rcorr matrix, one-element vector, and 3x3
p-value matrix.
I would like to use these outputs as data files.
How can these output tables be converted to data files?
Any assistance is appreciated.
Thanks. Bruce
library(Hmisc)
mtcars5 <- mtcars[sample(1:nrow(mtcars
I can't reproduce this.
On my system, the contents of an executable file named tmp.pl:
#! /opt/local/bin/perl
print "[A/B]\n";
At a shell prompt:
[72]% ./tmp.pl
[A/B]
Inside R:
> system(' ./tmp.pl')
[A/B]
--
Don MacQueen
Lawrence Livermore National Laboratory
7000 East Ave., L-627
Livermo
Dear Rxperts..
Here is the updated code.. to the above example.. how do I make the white
circles as "white filled" so that lines in the circles are not shown.?
Thanks and much appreciated
Santosh
q <- data.frame(G=rep(paste("G",1:3,sep=""),each=50),D=rep(
paste("D",1:5,sep=""),each=30),a=rep
Hi,
I can't answer the question about R 3.3.3, but I don't see anything in the
update notes.
http://mirror.its.dal.ca/cran/doc/manuals/r-release/NEWS.html
In the meantime, would it skirt your issue if you explicitly stated the format?
x <- as.POSIXct("2002-02-02 02:02", format = "%Y-%m-%d %H:
> On Apr 5, 2017, at 1:26 PM, Tunga Kantarcı wrote:
>
> My question is specifically about what I should use in the subject
> line when replying, because I do not trust mail clients, or to myself
> as I use different clients sometimes. Hence, I wanted to learn a
> client free solution to correctl
There is no conclusively client-free solution, which is why it is not in the
Posting Guide.
However, as a general rule, start with a fresh email to start a thread, and
reply-to-all to the message you want to reply to. The threading is managed by
hidden message ids, not subjects.
--
Sent fro
Hello Rxperts..
I am trying to generate a mean+/- error plot.. using ggplot2.. with filled
black and white circles and black lines, but no overlap of lines and
circles (symbols). Also, with no top and right lines of the plot box. I
remember having done this before.. unable to reproduce how I did!
OK this confused me. I thought object oriented coding should be
preferred because it allows cleaner, more efficient coding. But your
reply suggests it should be preferred because "R" is more efficient in
that way. Anyhow, this thread should indeed not become a discussion
point for this and I should
My question is specifically about what I should use in the subject
line when replying, because I do not trust mail clients, or to myself
as I use different clients sometimes. Hence, I wanted to learn a
client free solution to correctly send replies. Now, the posting guide
is not explicit about this
Bert,
Good distinction...
For clarification, I was referring to the "whole object approach" versus an
"object oriented" approach.
Regards,
Marc
> On Apr 5, 2017, at 12:43 PM, Bert Gunter wrote:
>
> ... Probably need to distinguish "whole object approach" from "object
> oriented" approach.
> On Apr 5, 2017, at 11:41 AM, Tunga Kantarcı wrote:
>
> OK I cannot figure this out clearly in the guidelines of posting. When
> I reply to a message I should out "Re:" in front of the subject line
> of the original post. So if the subject line of the original post it
> is "this is a post", the
... Probably need to distinguish "whole object approach" from "object
oriented" approach. They are different and almost orthogonal in R. R
tutorials discuss such matters, and there are many good ones on the
Web, including the "Intro to R" tutorial that ships with R. The OP
should spend some time wi
> On Apr 5, 2017, at 11:34 AM, Tunga Kantarcı wrote:
>
> Thanks a lot Marc, for informing that R is object oriented, implying
> that one should always try to vectorise the code (although I am not so
> clear why this should be the case) but also for all the references you
> provide.
Hi,
The r
OK I cannot figure this out clearly in the guidelines of posting. When
I reply to a message I should out "Re:" in front of the subject line
of the original post. So if the subject line of the original post it
is "this is a post", then I should use "Re: this is a post" in the
subject line, for my re
Thanks a lot Marc, for informing that R is object oriented, implying
that one should always try to vectorise the code (although I am not so
clear why this should be the case) but also for all the references you
provide.
__
R-help@r-project.org mailing li
On Wed, 5 Apr 2017 at 20:13 jim holtman wrote:
> if you have 8GB of memory it should be easy to handle.
>
>
>
TIFF is a container format and may be compressed internally, and so could
expand out as a matrix it might be very many times larger than the file
size implies.
(Follow Ben's advice and
Maybe you can use .libPaths to choose a different library
.libPaths("/myhome/Documents/R/R-3.0.2/library")
Or /usr/bin/R command in linux is a shell script, you can edit some paths and
make it work. ( I haven't tried it though)
-Original Message-
From: "Bogdan Tanasa" [tan...@gmail.c
Hi
I have lots of issues when I try to install R 3.3.3 during the "make
check" step.
Every time a call to as.POSIXct is done in test scripts, I got the same
error message:
e.g. x <- as.POSIXct("2002-02-02 02:02")
Error in as.POSIXlt.character(x, tz, ...) :
character string is not in a stan
Hi,
You'll get a lot of help if you take this question to the R-sig-geo list
https://stat.ethz.ch/mailman/listinfo/r-sig-geo
In the meantime, you might want to try reading this using raster::raster() and
then cropping to your desired region. Here's a discussion that may help you...
https://st
There is a package called sos that helps you answer such questions yourself.
There are also Task View pages on CRAN that help you identify useful packages.
--
Sent from my phone. Please excuse my brevity.
On April 4, 2017 9:28:32 PM PDT, Ruchika Salwan
wrote:
>Hey,
>
>Is there any package in
On the rseek.org search site,
"graph decomposition"
brought up what looked like some relevant hits. So search there if you
haven't done so already.
-- Bert
Bert Gunter
"The trouble with having an open mind is that people keep coming along
and sticking things into it."
-- Opus (aka Berkele
Hello,
Unless you have strong reasons why not, use the most recent one, R 3.3.
Hope this helps,
Rui barradas
Em 05-04-2017 03:47, Bogdan Tanasa escreveu:
Dear all,
please could you advise me on the following :
on a server, in a folder "x86_64-redhat-linux-gnu-library", i have 2
versions of
Ok. I have a tiff of size over 2GB. It covers a sixth of the Earth's surface
and I'm trying to cut a UK piece out of it. The tiff I start with seems to be
too large for R to handle.
Sent from my iPhone
> On 4 Apr 2017, at 18:37, jim holtman wrote:
>
> How big is 'large'?
>
> Jim Holtman
>
Hey,
Is there any package in R that handles graph decomposition? A package
created specifically for flat/hierarchical decomposition of graphs.
Thanks,
[[alternative HTML version deleted]]
__
R-help@r-project.org mailing list -- To UNSUBSCRIBE
Hello, I'm Davide.
I'm using the package RANKS, in particular the functions do.GBA, do.RW,
do.RANKS. To the funcs are given 2 different Matrix. One is a a simmetryc
adjacency Matrix(called "M"), where rows and columns are protein, and the
other is an annotation Matrix(called "ann"), where protein a
> On Apr 5, 2017, at 8:00 AM, Tunga Kantarcı wrote:
>
> I have the MATLAB code pasted below that calculates yields to maturity.
>
> IRR = zeros(length(c),length(M))
>
> The ith row and jth column is the price of the bond with coupon c(i)
> and maturity M(j).
>
> for i = 1:3
>for j = 1:3
>
I have the MATLAB code pasted below that calculates yields to maturity.
IRR = zeros(length(c),length(M))
The ith row and jth column is the price of the bond with coupon c(i)
and maturity M(j).
for i = 1:3
for j = 1:3
if j == 1
IRR(i,j) =
bndyield(mPricecon(i,j),c_org(i),'
if you have 8GB of memory it should be easy to handle.
Jim Holtman
Data Munger Guru
What is the problem that you are trying to solve?
Tell me what you want to do, not how you want to do it.
On Wed, Apr 5, 2017 at 3:23 AM, Louisa Reynolds
wrote:
> Ok. I have a tiff of size over 2GB. It covers
Thank you Rui. I have been using a package (TitanCNA) in BioC on an older
version of R (3.3.1);
now after switching to R3.3.3, I am getting an error (below), and I do not
know how to fix it. Any suggestions are welcome.
Error in `[<-.data.frame`(`*tmp*`, indRef, "refCount", value = NULL) :
repla
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