Displaying 20 results from an estimated 3000 matches similar to: "Show Progress in loop"
2005 Oct 10
3
Vectorizing loop
Hi
I have the following loop and would like to vectorize it. Any ideas if
it is possible?
Thanks,
Rainer
Tha Loop:
for (i in 2:Result$NoSims)
{
ppp <- runifpoint(Result$NoPlants)
K <- Kest(ppp)
Result$LSim[i,] <- sqrt(K$iso / pi) - K$r
CM <- (Result$LSim[i,] * Result$LSim[i,]) / abs(K$r[2] - K$r[1])
Result$SigCM[i] <- sum(CM, na.rm=TRUE)
print(i)
flush.console()
}
2006 Sep 20
4
Calculating mean together with split
Hi
I have a table called npl containing results of simulations.
It contains about 19000 entries and the structure looks like this:
NoPlants sim run year DensPlants
1 6 lng_cs99_renosterbos 1 4 0.00192
.
.
.
it has 43 different entries for sim and year goes from 1 to 100, and run
from 1 to 5.
I would like to calculate the mean of DensPlants for each
2005 Sep 30
2
Creating an array [0 to 101] of a list
Hi
I looked, but I didn't find it:
I need an array [0 to 101] where each element is a list (the result of
Kest in spatstat).
I.e. I want to do:
A[2] <- Kest(pp1)
A[3] <- Kest(pp2)
...
A[101] <- Kest(pp100)
How can I create A ?
Rainer
--
Rainer M. Krug, Dipl. Phys. (Germany), MSc Conservation
Biology (UCT)
Department of Conservation Ecology
University of Stellenbosch
Matieland
2012 Jul 02
1
SPATSTAT: Minimum points for a Ripley K to be sensible?
Hello,
What are the minimum number of points in a point pattern before a
clustering analysis using a Ripley K function loses any meaning?
I haven't been able to find much comment in the literature about this
--- instead case examples typically use 100-200 points as a minimum.
Regards,
Sebastian Pucilowski
2013 Feb 07
2
Spatstat - Kest, envelope problem
Hello,
I am writing cause I have a problem when try to create confidence envelopes
in spatstat.
I have a point data representing firms in my study area.
When I try to create confidence envelopes the error message turns up:
[> p <- envelope(point, fun=Kest, nsim=99)
Error in marks.ppp(Y, dfok = FALSE) :
Sorry, not implemented when the marks are a data frame]
Could you write me how can I
2007 Oct 03
2
Speeding up simulation of mean nearest neighbor distances
I've written the function below to simulate the mean 1st through nth
nearest neighbor distances for a random spatial pattern using the
functions nndist() and runifpoint() from spatsat. It works, but runs
relatively slowly - would appreciate suggestions on how to speed up
this function. Thanks. --Dale
library(spatstat)
sim.nth.mdist <- function(nth,nsim) {
D <- matrix(ncol=nth,
2006 Jan 12
1
envelopes of simulations
Hello!
I am writing you because I could not plot the confidence envelopes for
functions Jest, Jcross, Jdot, Jmulti, and L, using the Spatstat package.
I have already understood how to do that for Kest or Jest, that is:
JEnv <- plot(envelope(PPPData, Jest))
Where PPPData is my ppp object.
However, for Jcross I must specify the two marks I want to analyse.
That is, usually I would get the
2007 Oct 01
4
Concatenating one character vector into one string
Hi
I am sure this is simple - but how can I convert one charecter vector
into one string?
example:
x <- c("This ", "is ", "one ", "sentence.")
should become
"This is one entence"
Thanks
Rainer
--
NEW EMAIL ADDRESS AND ADDRESS:
Rainer.Krug at uct.ac.za
RKrug at sun.ac.za WILL BE DISCONTINUED END OF MARCH
Rainer M. Krug, Dipl. Phys.
2007 Sep 20
2
referencing packages?
Hi
I know how to referenc R in a scientific paper - but is there a
standardised way to reference packages?
Thanks
Rainer
--
NEW EMAIL ADDRESS AND ADDRESS:
Rainer.Krug at uct.ac.za
RKrug at sun.ac.za WILL BE DISCONTINUED END OF MARCH
Rainer M. Krug, Dipl. Phys. (Germany), MSc Conservation
Biology (UCT)
Plant Conservation Unit
Department of Botany
University of Cape Town
Rondebosch 7701
2009 Jun 04
4
order() with randomised order in ties?
Hi
I want to use order() to get the order of a vector.
But I would need a different behavior when ties occur: similar to the
parameter ties.method = "random" in the rank() function, I would need
to randomise the ties. Is this possible?
Example:
x <- rep(1:10, 2)
order(x)
[1] 1 11 2 12 3 13 4 14 5 15 6 16 7 17 8 18 9 19 10 20
order(x)
[1] 1 11 2 12 3 13 4 14 5 15
2006 Sep 06
4
problem with putting objects in list
Hi
I use the following code and it stores the results of density() in the
list dr:
dens <- function(run) { density( positions$X[positions$run==run], bw=3,
cut=-2 ) }
dr <- lapply(1:5, dens)
but the results are stored in dr[[i]] and not dr[i], i.e. plot(dr[[1]])
works, but plot([1]) doesn't.
Is there any way that I can store them in dr[i]?
Thanks a lot,
Rainer
--
Rainer M. Krug,
2009 Jul 29
8
Adding picture to graph?
Hi
while teaching R, the question came up if it would be possible to add
a picture (saved on the HDD) to a graph (generated by plot()), which
we could not answer.
It might easily kill a clean graph, but: is there a way of doing this,
even one should not do it?
On a similar line of thought: is it possibe to define own symbols so
that they can be used in the plot function with pch=?
Rainer
2007 Aug 16
6
several plots on several pages
Hi
> version
_
platform i686-pc-linux-gnu
arch i686
os linux-gnu
system i686, linux-gnu
status
major 2
minor 5.1
year 2007
month 06
day 27
svn rev 42083
language R
version.string R version 2.5.1 (2007-06-27)
I want to create a pdf withe three graphs on a page and with two pages:
2012 Aug 22
3
Question concerning anova()
Hi
I am comparing four different linear mixed effect models, derived from updating the original one. To
compare these, I want to use anova(). I therefore do the following (not reproducible - just to
illustration purpose!):
dat <- loadSPECIES(SPECIES)
subs <- expression(dead==FALSE & recTreat==FALSE)
feff <- noBefore~pHarv*year # fixed effect in the model
reff <-
2020 Sep 22
3
R > 4.0.0 on Debian 9 Stretch?
Hi Dirk,
Thanks for the explamnayion - Debian is running in a VM (and nothing really installed on it) , and I think the easiest is for me just to install Debian 10 and to use that one.
Thanks a lot,
Rainer
> On 22 Sep 2020, at 15:14, Dirk Eddelbuettel <edd at debian.org> wrote:
>
>
> On 22 September 2020 at 14:49, Rainer M Krug wrote:
> | I know this is likely
2007 Mar 05
4
Identifying last record in individual growth data over different time intervalls
Hi
I have a plist t which contains size measurements of individual plants,
identified by the field "plate". It contains, among other, a field
"year" indicating the year in which the individual was measured and the
"height". The number of measurements range from 1 to 4 measurements in
different years.
My problem is that I would need the LAST measurement. I only
2007 May 28
1
Where to find "nprq"?
Hi
I am trying to install the package "pheno", but it needs the package
"nprq" by Roger Koenker et al. which I can I find this package? It does
not seem to be on CRAN and googling also doesn't give me an URL - is it
still somewhere available?
Thanks,
Rainer
--
NEW EMAIL ADDRESS AND ADDRESS:
Rainer.Krug at uct.ac.za
RKrug at sun.ac.za WILL BE DISCONTINUED END OF
2006 Feb 27
2
about"Riply's K function"and "envelope"
hi!
I did Riply's K function and envelope in the package "SPATSTAT". When the
species number is less, it can work well and it is quickly. But when the
species number is more(example:2000), it told me"memory limit". So I change
"memory limit". But the speed is very slow. I took 13 hours to run the
programe.
Perhaps there are other methods that can do it. Or just
2008 Mar 14
2
Selecting elements in vector
Hi
Consider the following code
> x <- rep(1:13, 13)
> y <- 1:3
I want to select all elements in x which are equal to 1, 2 or 3.
I know that I could use
> sel <- x==y[1] | x==y[2] | x==y[3]
> x[sel]
to obtain the values, but in my analysis, the y-vector is thousands of
elements long.
Is there any way, that I can do that easily?
Thanks
Rainer
--
Rainer M. Krug, Dipl.
2009 Oct 30
2
Ubuntu packages compiled with 2.9
Hi
I upgraded to R 2.10.0, and I encounter a problem with some packages on R,
installed via apt-get..
They are still compiled by 2.9 and give me an warning when I load the
packages. Will these packages be recompiled with R 2.10, or should I rather
switch to self-compiling?
Cheers,
Rainer
--
Rainer M. Krug, PhD (Conservation Ecology, SUN), MSc (Conservation Biology,
UCT), Dipl. Phys.