Displaying 20 results from an estimated 200 matches similar to: "parametric estimators for species richness in R"
2018 May 18
3
Exporting to text files
I have dose response data analyzed with the package 'drc'.
'summary(mymodel)' prints my kinetic parameters. I want
that text in an ASCII text file. I want to get exactly what I
would get if I copied and pasted from the terminal window.
I've read the documentation on data export to text files here:
2005 Jul 19
2
Michaelis-menten equation
Dear R users:
I encountered difficulties in michaelis-menten equation. I found
that when I use right model definiens, I got wrong Km vlaue,
and I got right Km value when i use wrong model definiens.
The value of Vd and Vmax are correct in these two models.
#-----right model definiens--------
PKindex<-data.frame(time=c(0,1,2,4,6,8,10,12,16,20,24),
2000 Aug 12
1
Nonlinear regression question
Dear R users
I recently migrated from Statistica/SigmaPlot (Windows) to R (Linux), so
please excuse if this may sound 'basic'.
When running a nonlinear regression (V = Vmax * conc / (Ks + conc), i.e.
Michaelis-Menten) on SigmaPlot, I get the output listed below:
>>>Begin SigmaPlot Output<<<
R = 0.94860969 Rsqr = 0.89986035 Adj Rsqr = 0.89458984
Standard Error of
2018 May 18
0
Exporting to text files
?sink
On May 18, 2018 9:47:25 AM PDT, Ed Siefker <ebs15242 at gmail.com> wrote:
>I have dose response data analyzed with the package 'drc'.
>'summary(mymodel)' prints my kinetic parameters. I want
>that text in an ASCII text file. I want to get exactly what I
>would get if I copied and pasted from the terminal window.
>
>I've read the documentation on
2010 Sep 23
3
accumulation curves
Hi,
I am trying to fit a logarithmic trendline to a scatterplot of a
species accumulation curve. I've tried abline, lines, curve and
scatter.smooth but none of these work.
Can anyone help please,
Kyran
2003 Oct 30
2
'nls' and its arguments
Dear R experts!
I'd to fit data by 'nls' with me-supplied function 'fcn'.
1) I'd like 'fcn' to accept arbitrary arguments, i.e. I defined it
as f(...) {<body>}. (Ok, that's not actually impotant).
2) Second, I would NOT like to supply every parameter in the formula.
To illustrate this, let's look at the last example of 'nls' help
2008 Sep 09
1
binomial(link="inverse")
this may be a better question for r-devel, but ...
Is there a particular reason (and if so, what is it) that
the inverse link is not in the list of allowable link functions
for the binomial family? I initially thought this might
have something to do with the properties of canonical
vs non-canonical link functions, but since other link functions
(probit, cloglog, cauchit, log) are allowed, I
2011 Aug 16
1
deSolve, extracting variable values from inside ode function
I'm just getting to grips with using ode function and have used the
examples and vignettes to produce a small model of a one-pool,
michaelis-menten, enzyme kinetic reaction. The rate of flux of substrate
into pool A is constant (fluxoa) however the rate of flux out of pool A
is controlled by the HMM equation (v = Vmax/ ( 1 + (Km / Concentration A
)) ). This function works fine and
2008 Nov 03
2
standard errors for predict.nls?
Dear all,
Is there a way to retrieve standard errors from nls models? The help page tells me that arguments
such as se.fit are ignored...
Many thanks and best wishes
Christoph
--
Dr. rer.nat. Christoph Scherber
University of Goettingen
DNPW, Agroecology
Waldweg 26
D-37073 Goettingen
Germany
phone +49 (0)551 39 8807
fax +49 (0)551 39 8806
Homepage http://www.gwdg.de/~cscherb1
2005 Jul 11
2
Weighted nls
Dear R Community,
I am attempting to perform a weighted non-linear least squares fit. It has already been noted that the weights option is not yet implemented for the nls function, but no one seems to offer any suggestions for getting around this problem. I am still curious if a) anyone has code they have written which includes a weight options for nls, or b) if there is another model which
2011 Feb 06
1
anova() interpretation and error message
Hi there,
I have a data frame as listed below:
> Ca.P.Biomass.A
P Biomass
1 334.5567 0.2870000
2 737.5400 0.5713333
3 894.5300 0.6393333
4 782.3800 0.5836667
5 857.5900 0.6003333
6 829.2700 0.5883333
I have fit the data using logistic, Michaelis?Menten, and linear model,
they all give significance.
> fm1 <- nls(Biomass~SSlogis(P, phi1, phi2, phi3), data=Ca.P.Biomass.A)
2006 Jul 18
4
How can I extract information from list which class is nls
Hello!
I work with :
R : Copyright 2006, The R Foundation for
Statistical Computing
Version 2.3.1 (2006-06-01)
On Windows XP Professional (Version 2002) SP2.
At this moment I use the function "nls" combined
with a selfStar model (SSmicmen, related to
Michaelis-Menten equation, and provided by the
"stats" package).
When I realise the following operation (cf. p 59
of the
2004 Nov 08
2
Nonlinear weighted least squares estimation
Hi there,
I'm trying to fit a growth curve to some data and need to use a weighted least squares estimator to account for heteroscedasticity in the data. A weights argument is available in nls that would appear to be appropriate for this purpose, but it is listed as 'not yet implemented'. Is there another package which could implement this procedure?
Regards,
Robert Brown
2008 Jan 22
2
extension to nlme self start SSmicmen?
Dear list,
Has anyone created a version of SSmicmen that allows testing for group
differences? The basic Michaelis-Menten equation is:
(Bmax * X) / (Kd + X).
The nlme package allows modeling of random effects for Bmax and Kd as
needed, but I curious how I can build in group differences? I have
receptor binding data for strains of mice, and following Pinheiro and
Bates' lead in their
2007 Jun 07
2
Nonlinear Regression
Hello
I followed the example in page 59, chapter 11 of the 'Introduction to R'
manual. I entered my own x,y data. I used the least squares. My function has
5 parameters: p[1], p[2], p[3], p[4], p[5]. I plotted the x-y data. Then I
used lines(spline(xfit,yfit)) to overlay best curves on the data while
changing the parameters. My question is how do I calculate the residual sum
of squares.
2009 Oct 12
2
Error: cannot allocate vector of size 1.2 Gb
Dear List,
today I turn to you with a next problem. I'm trying to compare species
richness between various datasets (locations) using species accumulation
curves (Chapter 4, page 54 in Tree diversity
analysis<http://www.worldagroforestry.org/treesandmarkets/tree_diversity_analysis.asp>by
Kindt & Coe). To accomplish this I'm using package
BiodiversityR. My data is comprised of
2002 Sep 06
6
questiona about CBQ algorithm in Linux
Hi Stef and Alexey
I have read some documents about CBQ algorithm from http://www.icir.org/floyd/cbq.html
but still have some question about CBQ in Linux
.
1. First estimator can estimate how much bandwidth already USED per class. one estimating algorithm is EWMA (exponential weighted moving average), how about Linux implemenatation about estimator?
also do you have link for this algorithm? I
2008 Dec 16
2
[LLVMdev] OpenCL Frontend
Awesome, is the development of this being tracked somewhere? And is
there a way I can get involved?
Timothy
On Tue, Dec 16, 2008 at 11:52 AM, Zack Rusin <zack at tungstengraphics.com> wrote:
> On Tuesday 16 December 2008 12:21:24 Timothy Baldridge wrote:
>> There seems to be some interest these days in OpenCL. However for some
>> projects, a issue they face to adopting
2008 Dec 16
0
[LLVMdev] OpenCL Frontend
I'm still not very clear about this "OpenCL" concept. What will your
project provide? Does it mean that we can write code in this language, and
run it on any multi-core machines? I'm also very interested in this work.
[LLVMdev] how to check whether from basicblock A we can go to basicblock B within the same function?
2010 Aug 27
2
[LLVMdev] how to check whether from basicblock A we can go to basicblock B within the same function?
> Every basic block ends with a terminator instruction that indicates
> which basic block or basic blocks it should branch to next. Switch,
> invoke, and branch are all terminator instructions. There may be more
> that I don't remember.
>
Why not just use the predecessor and successor iterator?
http://llvm.org/docs/ProgrammersManual.html#iterate_preds