what I'm calling amplitude, the d and f are what
I'm calling phase.
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On Tue, 20 Jun 2017, lily li wrote:
Hi R users,
I have a question about fitting a cosine curve. I don't know how to set the
approximate starting values.
See
Y.L. Tong (1976) Biometrics 32:85-94
The method is known as `cosinor' analysis. It takes advantage of the
*intrinsic* linear
On Tue, 6 Jun 2017, Morway, Eric wrote:
Using the dataset below, I got close to what I'm after, but not quite all
the way there. Any suggestions appreciated:
Daily <- read.table(textConnection(" Date wyrQ
1911-04-01 1990 4.530695
1911-04-02 1990 4.700596
1911-04-03 1990 4.898814
1
EASE do read the posting guide
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and provide commented, minimal, self-contained, reproducible code.
Charles C. Berry Dept of Family Medicine & Public Health
cberry at ucsd edu UC San Diego /
On Thu, 1 Jun 2017, POLWART, Calum (COUNTY DURHAM AND DARLINGTON NHS FOUNDATION
TRUST) via R-help wrote:
Before I go and do this another way - can I check if anyone has a way of
looping through data in odfWeave (or possibly sweave) to do a repeating
analysis on subsets of data?
For simplicit
On Tue, 21 Feb 2017, stephen sefick wrote:
Sorry for not being clear. I have never used S3 methods before. Below is
some R code that sketches out my idea. Is this a sensible solution?
Sure. See comments (untested) inline.
Chuck
test_data <- data.frame(a=1:10, b=1:10, c=1:10)
functionA <-
On Mon, 20 Feb 2017, stephen sefick wrote:
Hello,
I would like to add something to a data frame that is 1) invisible to the
user, 2) has no side effects, and 3) I can test for in a following
function. Is this possible? I am exploring classes and attributes and I
have thought about using a list
On Wed, 7 Dec 2016, Marc Girondot via R-help wrote:
Hi,
From the documentation of ?options
Options set in package parallel
These will be set when package parallel (or its namespace) is loaded if not
already set.
mc.cores:
a integer giving the maximum allowed number of additional R processes
On Mon, 14 Nov 2016, Marc Schwartz wrote:
On Nov 14, 2016, at 11:26 AM, Charles C. Berry wrote:
On Mon, 14 Nov 2016, Bert Gunter wrote:
[stuff deleted]
Hi,
Both gsub() and strsplit() are using regex based pattern matching
internally. That being said, they are ultimately calling
On Mon, 14 Nov 2016, Bert Gunter wrote:
Yes, but it need some help, since nchar gives the length of the
*entire* string; e.g.
## to count "a" 's :
x <-(c("abbababba","bbabbabbaaaba"))
nchar(gsub("[^a]","",x))
[1] 4 6
This is one of about 8 zillion ways to do this in base R if you don't
wan
On Tue, 8 Nov 2016, Doran, Harold wrote:
Without reaching out to another package in R, I wonder what the best way is to
speed enhance the following toy example? Over the years I have become very
comfortable with the family of apply functions and generally not good at
finding an improvement fo
On Mon, 7 Nov 2016, Rolf Turner wrote:
On 07/11/16 13:07, William Dunlap wrote:
Have you tried reparameterizing, using logb (=log(b)) instead of b?
Uh, no. I don't think that that makes any sense in my context.
The "b" values are probabilities and must satisfy a "sum-to-1" constraint.
To a
On Mon, 31 Oct 2016, Jeff Newmiller wrote:
The help page describes the first argument x as a numeric... it is not
designed to accept character,
Actually it is so designed, but not advertised as such. See below.
so the fact that you get anything even close to right is just a bonus.
As the do
On Wed, 19 Oct 2016, g.maub...@weinwolf.de wrote:
Hi All,
I would like to store a long string with white space in a variable:
-- cut --
# Create README.md
readme <- "---
title: "Your project title here"
author: "Author(s) name(s) here"
date: "Current date here"
output: html_document
---
[s
On Mon, 3 Oct 2016, Frank S. wrote:
Dear R users,
[deleted]
I want to get a list of "k" data tables (or data frames) so that each
contains those individuals who for the first time are at least 65,
looping on each of the dates of vector "v". Let's consider the following
example with 5 ind
On Sat, 3 Sep 2016, Bert Gunter wrote:
Chuck et. al.:
As I said previously, my intuition about the relative efficiency of
tapply() and duplicated() in the context of this thread was wrong.
My `intuition' was wrong, too.
But tapply() uses split() which runs quite fast. So not a big surprise,
On Fri, 2 Sep 2016, Bert Gunter wrote:
[snip]
The "trick" is to use tapply() to select the necessary row indices of
your data frame and forget about all the do.call and rbind stuff. e.g.
I agree the way to go is "select the necessary row indices" but I get
there a different way. See below.
On Mon, 8 Aug 2016, Ellis, Alicia M wrote:
I have a large dataset with ~500,000 columns and 1264 rows. Each column
represents the percent methylation at a given location in the genome.
I need to run 500,000 linear models for each of 4 predictors of interest
in the form of:
Methylation.stie
On Sat, 9 Jul 2016, Debasish Pai Mazumder wrote:
I have 4-dimension array x(lat,lon,time,var)
I am using "apply" to calculate over time
new = apply(x,c(1,2,4),FUN=function(y) {length(which(y>=70))})
This is very slow. Is there anyway make it faster?
If dim(x)[3] << prod(dim(x)[-3]),
new <-
See below
On Fri, 1 Jul 2016, Mark Shanks wrote:
Hi,
Imagine the two problems:
1) You have an event that occurs repeatedly over time. You want to
identify periods when the event occurs more frequently than the base
rate of occurrence. Ideally, you don't want to have to specify the
perio
On Sun, 17 Jan 2016, Lars Bishop wrote:
I’d appreciate your help on understanding the following.
It is not very clear to me from the model.matrix documentation, why
simply changing the order of terms in the formula may change the number
of resulting columns. Please note I’m purposely not in
t of Statistics
University of Auckland
Phone: +64-9-373-7599 ext. 88276
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On Wed, 21 Oct 2015, Ravi Varadhan wrote:
Hi, I am dealing with a regression problem where the response variable,
time (second) to walk 15 ft, is rounded to the nearest integer. I do
not care for the regression coefficients per se, but my main interest is
in getting the prediction equation fo
On Tue, 22 Sep 2015, John Sorkin wrote:
Charles,
I am not sure the answer to me question, given a dataset, how can one
compare the fit of a model of the fits the data to a mixture of two
normal distributions to the fit of a model that uses a single normal
distribution, can be based on the g
On Tue, 22 Sep 2015, John Sorkin wrote:
In any event, I still don't know how to fit a single normal distribution
and get a measure of fit e.g. log likelihood.
Gotta love R:
y <- rnorm(10)
logLik(glm(y~1))
'log Lik.' -17.36071 (df=2)
HTH,
Chuck
On Thu, 17 Sep 2015, Berend Hasselman wrote:
On 17 Sep 2015, at 01:42, Dénes Tóth wrote:
On 09/16/2015 04:41 PM, Bert Gunter wrote:
Yes! Chuck's use of mapply is exactly the split/combine strategy I was
looking for. In retrospect, exactly how one should think about it.
Many thanks to all
On Tue, 15 Sep 2015, Bert Gunter wrote:
Thanks to both Davids.
I realize that these things are often a matter of aesthetics -- and
hence have little rational justification -- but I agree with The Other
David: eval(parse) seems to me to violate R's soul( it makes R a macro
language instead of a
On Sat, 29 Aug 2015, Shant Ch wrote:
Hello Dr. Berry,
I know the theoretical side but note we are not talking about
expectation of sums rather expectation of ABSOLUTE value of the function
(X1/3+X2/3+X3/3-X4), i.e. E|X1/3+X2/3+X3/3-X4| , I don't think this
can be handled for log normal distr
/www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
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On Sat, 11 Jul 2015, Bert Gunter wrote:
David/Jeff:
Thank you both.
You seem to confirm that my observation of an "infelicity" in
strsplit() is real. That is most helpful.
I found nothing in David's message 2 code that was surprising. That
is, the splits shown conform to what I would expect f
On Sat, 18 Apr 2015, Brant Inman wrote:
I have two large data frames with the following structure:
df1
id date test1.result
1 a 2009-08-28 1
2 a 2009-09-16 1
3 b 2008-08-06 0
4 c 2012-02-02 1
5 c 2010-08-03 1
6 c 2012-08-02 0
df2
id date te
On Sat, 7 Mar 2015, Rolf Turner wrote:
On 06/03/15 22:34, Namratha K wrote:
Dear Sir/Madam,
I am a student pursuing MCA .As i am doing an project using R language .I
want to implement A/B testing using R language.I am searching in google
from past few days and not able to implement .So i requ
On Mon, 23 Feb 2015, Ramiro Barrantes wrote:
Thank you for pointing this out. I had no idea about the distinction
but there are some good references on the matter
(http://www.r-bloggers.com/packages-v-libraries-in-r/). I am pasting
the corrected version below, any suggestions appreciated:
On Fri, 20 Feb 2015, Aron Lindberg wrote:
Hmm…Chuck’s solution may actually be problematic because there are several
entries which at the deepest level are called “sha”, but that should not be
included, such as:
input[[67]]$content[[1]]$commit$tree$sha
and
input[[67]]$content[[1]]
Consulting, Department of Statistics
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http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Charles C. BerryDept of Family/Preventive Medicine
cbe...@tajo.ucsd.eduUC San Diego
http://famprevmed.ucsd.edu/faculty/cberry/ La Jo
osting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Charles C. BerryDept of Family/Preventive Medicine
cbe...@tajo.ucsd.eduUC San Diego
http://famprevmed.ucsd.edu/faculty
quot; "b" "c" "A" "B" "C"
$I$B
[1] "d" "e" "f" "D" "E" "F"
$II
$II$A
[1] "g" "h" "i" "G" "H" "I"
$II$B
[1] "j" "k&
nd provide commented, minimal, self-contained, reproducible code.
Charles C. BerryDept of Family/Preventive Medicine
cbe...@tajo.ucsd.eduUC San Diego
http://famprevmed.ucsd.edu/faculty/cberry/ La Jolla, San Diego 92093-0901
__
o read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Charles C. BerryDept of Family/Preventive Medicine
cbe...@tajo.ucsd.eduUC San Diego
http://famprevmed
k
Would be grateful for any help.
?
Thanks,
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cbe...@tajo.ucsd.eduUC San Diego
http://famprevmed.ucsd.edu/faculty/cber
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ASE do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Charles C. BerryDept of Family/Preventive Medicine
cbe...@tajo.ucsd.eduUC San Diego
h
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hed base packages:
[1] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached):
[1] tools_2.12.0
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oject.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Charles C. BerryDept of Family/Preventive Medicine
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Extension:?5235
cmccar...@bmcc.cuny.edu
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cbe...@tajo.ucsd.eduUC San Diego
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ot;value1") - but
how... I've also played around with "apply" but without any success.
Thanks for any help!
Patrick
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Charles C. BerryDept of Family/Preventive Medicine
cbe...@tajo.ucsd.edu
On Tue, 23 Nov 2010, David Winsemius wrote:
On Nov 23, 2010, at 11:04 AM, Charles C. Berry wrote:
On Tue, 23 Nov 2010, Dennis Murphy wrote:
> Interesting. Check this out:
>
> u <- sample(c(TRUE, FALSE), 10, replace = TRUE)
> > u
> [1] FALSE FALSE TRUE FALSE FALSE T
do read the posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Charles C. BerryDept of Family/Preventive Medicine
cbe...@tajo.ucsd.eduUC San Diego
http://famprevmed.ucsd.edu
ttp://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Charles C. BerryDept of Family/Preventive Medicine
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http://fam
t Nabble.com.
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e http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Charles C. BerryDept of Family/Preventive Medicine
cbe...@tajo.ucsd.eduUC San Diego
http://famprevmed
a d j k l o
1 3 1 4 2 4
diff(res[['o']])-1
[1] 3 2 4
# or
sapply(sapply(res,diff),"-",1)
$a
numeric(0)
$d
[1] 0 0
$j
numeric(0)
$k
[1] 2 3 0
$l
[1] 0
$o
[1] 3 2 4
Chuck
On 11/05/2010 12:28 AM, Charles C. Berry wrote:
On Thu, 4 Nov 2010, Immanuel wrote:
Hell
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Charles C. BerryDept of Family
On Wed, 27 Oct 2010, Charles C. Berry wrote:
On Wed, 27 Oct 2010, Alex P. wrote:
Hello All,
I have multiple "list of lists" in the form of
Mylist1[[N]][[K]]$Name_i,
with N=1..6, K=1..3, and i=1..7. Each Name_i is a matrix. I have 30 of
these objects Mylist1, Mylist2, ...
read the posting guide http://www.R-project.org/posting-guide.html
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Charles C. Berry(858) 534-2098
Dept of Family/Preventive Medicine
E mailto:cbe...@tajo.ucsd
to do
with model.frame, but not sure how) would also
be greatly appreciated!
Thanks!
--Erik
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d, minimal, self-contained, reproducible code.
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tp://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Charles C. Berry(858) 534-2098
Dept of Family/Preventive Medicine
E mailto:cbe...@tajo.ucsd.edu UC San
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and provide commented, minimal, self-contained, reproducible code.
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e.html
and provide commented, minimal, self-contained, reproducible code.
Charles C. Berry(858) 534-2098
Dept of Family/Preventive Medicine
E mailto:cbe...@tajo.ucsd.edu UC San Diego
http://famprevmed.ucs
g guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Charles C. Berry(858) 534-2098
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Dept of Fam
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--
Bert Gunter
Genentech Nonclinical Biostatistics
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5 + 16 + 17 + 18 + 19 + 20
nchar(readLines("testwrap.R"))
[1] 95 59
and of course you will want 'sink' or some such to save the lines.
HTH,
Chuck
Heyi
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Charles C. Berry(858) 534-2
de.html
and provide commented, minimal, self-contained, reproducible code.
Charles C. Berry(858) 534-2098
Dept of Family/Preventive Medicine
E mailto:cbe...@tajo.ucsd.edu UC San Diego
http:/
oducible code.
Charles C. Berry(858) 534-2098
Dept of Family/Preventive Medicine
E mailto:cbe...@tajo.ucsd.edu UC San Diego
http://famprevmed.ucsd.edu/faculty/cberry/ La Jo
files, given experimental
replication).
Thank you,
Laura
--
" Genius is the summed production of the many with the names of the few
attached for easy recall, unfairly so to other scientists"
- E. O. Wilson (The Diversity of Life)
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ge: Skype/]pablocerdeira
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--
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Institut fuer anorganische Chemie
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GPG Key ID = A46BEE1A
Charles C. Berry(858) 534-2098
On Wed, 11 Aug 2010, David Winsemius wrote:
On Aug 11, 2010, at 6:45 PM, Charles C. Berry wrote:
On Wed, 11 Aug 2010, David Winsemius wrote:
>
> On Aug 11, 2010, at 6:03 PM, Jarrett Byrnes wrote:
>
> > I have formulae with coefficents that I would like to update. However,
ting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Charles C. Berry(858) 534-2098
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E mailto:cbe...@tajo.ucsd.edu UC San Diego
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lp
PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
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Charles C. Berry(858) 534-2098
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Charles C. Berry(858) 534-2098
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http:
it is a common function
HTH,
Chuck
I hope this is clear...
Thanks
Roy
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2:33:45
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e.html
and provide commented, minimal, self-contained, reproducible code.
Charles C. Berry(858) 534-2098
Dept of Family/Preventive Medicine
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On Tue, 27 Jul 2010, Christopher David Desjardins wrote:
Hi Charles,
On Fri, 2010-07-23 at 14:40 -0700, Charles C. Berry wrote:
On Fri, 23 Jul 2010, Christopher David Desjardins wrote:
Sorry. I should have included some data. I've attached a subset of my
data (50/192) cases in a Rdata
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there any command that can update the table ZZ for each time so that in the
above example, ZZ will be
"A" "B" "C" "D"
?7??? 17?? 2??? 8
Thanks.
liu
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Charles C. Berry(858
L
47 14.789870 MAJOR
48 20.054760 MAJOR
49 14.787130 MAJOR
50 19.868580 MAJOR
On Fri, 2010-07-23 at 11:52 -0700, Charles C. Berry wrote:
On Fri, 23 Jul 2010, Christopher David Desjardins wrote:
Hi,
I am trying to fit the following model:
sr.reg.s4.nore <- survreg(Su
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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
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Charles C. Berry(858) 534-2098
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PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
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Charles C. Berry(858) 534-2098
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Charle
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PLEASE do read the posting guide
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=mu+dividers*sigma, labels=c(b1,b2,b3,b4,b5), padj=-1)
>
>
>
>
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PLEASE do read the posting guide
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he posting guide http://www.R-project.org/posting-guide.html
and provide commented, minimal, self-contained, reproducible code.
Charles C. Berry(858) 534-2098
Dept of Family/Preventive Medicine
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