Displaying 20 results from an estimated 600 matches similar to: "regression with nestedness"
2006 Jan 24
4
nested ANCOVA: still confused
Dear R-users,
I did some more research and I'm still not sure how to set up an ANCOVA
with nestedness. Specifically I'm not sure how to express chicks nested
within boxes. I will be getting Pinheiro & Bates (Mixed Effects Models
in S and S-Plus) but it will not arrive for another two weeks from our
interlibrary loan.
The goal is to determine if there are urbanization (purban)
2006 Oct 05
4
glm with nesting
I just had a manuscript returned with the biggest problem being the
analysis. Instead of using principal components in a regression I've
been asked to analyze a few variables separately. So that's what I'm
doing.
I pulled a feather from young birds and we quantified certain aspects of
the color of those feathers. Since I often have more than one sample
from a nest, I thought I
2008 Dec 17
1
Model building using lmer
Dear R-experts,
Quite new to R on this end, but learning fast (I hope).
I am running version 2.7.1 on Windows Vista. I have small dataset
which consists of:
# NestID: nest indicator for each chicken. Siblings sharing the same nest have the same nest indicator.
# Chick: chick indicator consisting of a unique ID for each single chick.
# Year: 1, 2.
# ClutchSize: 1-, 2- , 3-eggs.
# HO:
2006 Feb 05
1
3-dimensional table
Hi,
Last week my class conducted an experiment by putting out clay
caterpillars to look at the effects of urbanization, color, and location
on caterpillar predation. There were two sites (urban, rural), three
colors (green, yellow, red) and two locations at each site (edge,
interior). The entire data set is below. I've checked out the MASS
book, Dalgaard's book, and the R-help archives
2006 Oct 18
3
creating bins for a plot
Hi. I'm trying to plot the ratio of used versus unused bird houses
(coded 1 or 0) versus a continuous environmental gradient (proportion of
urban cover [purban2]) that I would like to convert into bins (0 -
0.25, 0.26 - 0.5, 0.51 - 0.75, 0.76 - 1.0) and I'm not having much luck
figuring this out. I ran a logistic regression and purban2 ends up
driving the probability of a box being
2005 Oct 31
4
Import help (neophyte)
Hi, I have no experience with R and I'm finding the manuals a bit obtuse
and written as if I already understood R.
I'm trying to import a csv file from a floppy and it's not working. The
code I'm using is
read.table("F:\GEORGIA\species_richness\SR_use.csv", sep=",", header =
TRUE, row.names = 1)
I'm assuming that this command is case sensitive so
2005 Nov 01
1
help with hier.part
R-users,
Attached is the file (SR_use2.txt) I'd like to include and includes
column headers. nat_est is the response variable and is the number of
species at a particular point. The other variables are the explanatory
vars (vark, var2, var1, UK, U2, U1, GK, G2, G1, PK, P2, P1).
Here is Walsh's sample code for hier.part:
data(urbanwq)
env <- urbanwq[,2,8]
hier.part(urbanwq$lec,
2006 Oct 13
4
nontabular logistic regression
Hi. I'm attempting to fit a logistic/binomial model so I can determine
the influence of landscape on the probability that a box gets used by a
bird. I've looked at a few sources (MASS text, Dalgaard, Fox and
google) and the examples are almost always based on tabular predictor
variables. My data, however are not. I'm not sure if that is the
source of the problems or not because the
2005 Nov 11
1
glm x^2
R-users,
I'm having some trouble getting .glm and glm.nb to run a polynomial.
I've used x*x and x^2 and neither works. I've checked out the archives
and they refer to an archive that's no longer working.
I've seen that they use poly() but I'm following up my analysis with
cv.glm so I'd prefer to keep using glm. It's easier to just add a
column to my data but
2005 Oct 07
3
index question
All,
I'm having a problem selecting directly from a vector. I've written ways to do this
indirectly, but I'd rather do it directly and didn't see this in the manual.
Essentially, I have:
> group.label.new
[1] 7 9 6 1 10 4 8 3 2 5
> junk
[1] 1 2
> group.label.new[junk && 8:10]
[1] 7 9 6 1 10 4 8 3 2 5
I'd like to select the elements
2008 Jul 30
1
bug in 'margins' behavior in reshape - cast
according to the documentation of the cast function in the reshape function,
I would expect this bit of code from the examples to calculate marginal
means over only the 'diet' variable.
#Chick weight example
names(ChickWeight) <- tolower(names(ChickWeight))
chick_m <- melt(ChickWeight, id=2:4, na.rm=TRUE)
cast(chick_m, diet + chick ~ time, mean, margins="diet")
But,
2009 Jul 06
2
ReShape chicks example - line plots
Hi,
In the examples from the ReShape package there is a simple example
of using melt followed by cast that produces a smallish amount of
output about the chicks database. Here's the code:
library(reshape)
names(ChickWeight) <- tolower(names(ChickWeight))
chick_m <- melt(ChickWeight, id=2:4, na.rm=TRUE)
DietResults <- cast(chick_m, diet + chick ~ time)
DietResults
My challenge
2005 Nov 19
1
predicted values from cv.glm
Hi. Is there a way to get the values predicted from (leave-one-out)
cv.glm?
It seems like a useful diagnostic to plot observed vs. predicted values.
Thanks,
Jeff
****************************************
Jeffrey A. Stratford, Ph.D.
Postdoctoral Associate
331 Funchess Hall
Department of Biological Sciences
Auburn University
Auburn, AL 36849
334-329-9198
FAX 334-844-9234
2006 Sep 05
1
help: advice on the structuring of ReML models for analysing growth curves
Hi R experts,
I am interested on the effects of two dietry compunds on the growth of
chicks. Rather than extracting linear growth functions for each chick and
using these in an analysis I thought using ReML might provide a neater and
better way of doing this. (I have read the pdf vignette("MlmSoftRev") and
"Fitting linear mixed models in R" by Douglas Bates but I am not
2009 Nov 14
4
Weighted descriptives by levels of another variables
I've noticed that R has a number of very useful functions for
obtaining descriptive statistics on groups of variables, including
summary {stats}, describe {Hmisc}, and describe {psych}, but none that
I have found is able to provided weighted descriptives of subsets of a
data set (ex. descriptives for both males and females for age, where
accurate results require use of sampling
2008 Dec 03
1
GLMM using lme4
Dear R-experts,
I am running R version 2.7.1 on Windows Vista. I have a small dataset which consists of ?chick ID?, ?year (0, 1)?, ?hatching order [HO, defined as first, second and third-hatched chick]?, and the binary outcome of interest ?death (0, 1)?. So a subset of my dataset looks like this on a txt file:
y ID Yr HO
1 1 1 First
0 2 1 First
0 3 1 Second
0 4 1 First
1 5 1 First
0 6 1 Third
2005 Nov 08
1
Poisson/negbin followed by jackknife
Folks,
Thanks for the help with the hier.part analysis. All the problems
stemmed from an import problem which was solved with file.chose().
Now that I have the variables that I'd like to use I need to run some
GLM models. I think I have that part under control but I'd like to use
a jackknife approach to model validation (I was using a hold out sample
but this seems to have fallen out
2008 Sep 23
1
Create groups from data to compute lm?
Hello,
Below are the first two rows from my dataset and the header. This dataset
has 5749 rows and I want to select only certain rows to be used based on
existing grouping values. I am trying to group the data based on the values
under 'ex_bin'. (e.g a group for 250, 251, 252, 500, 501, 502) I would then
like to perform a lm for each grouping.
My data:
> all[1:2,]
year extent scape
2015 Apr 30
2
predict nlme
Estimado Oliver Nuñez
Envío un ejemplo reproducible.
Javier Marcuzzi
# de donde tomo datos, y tiene el modelo (en el pdf)
library(MCMCglmm)
# librería con las funciónes que voy a usar
library(nlme)
datos0<-ChickWeight
# creo algunos datos que agrego a los origonales
Factor<-as.numeric(datos0$Chick)
Factor[Factor > 0 & Factor <= 10] <- 'A'
Factor[Factor > 10
2017 Nov 01
1
Creating Tag
i want to tag categories to its menuname.
i have a csv containing menu item name and in other csv i have a column
containing some strings,
i want to pick that strings from categories and look into menu items if
any menu item containing that string i want to create a new column next to
menu item name flagged as 1 otherwise 0
and the only condition is once a menu item flagged as 1 i don't need