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Check distributions - Hierarchy

We are analysing imaging data of synapses in brains of multiple animals of different genotypes (groups). I have variable number of synapses in each animal. I am measuring the volume of each ...
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1answer
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Mean comparison multiple groups **NESTED ANOVA**

I’m not sure if this question has been asked before as I don’t know how to phrase it in a search. But essentially I’m trying to test if there are differences between store locations that have trained ...
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Nested ANOVA alternative for heteroscedastic data (Nested Welch ANOVA)

Question: Is there an equivalent of Nested -ANOVA for data which fails ANOVA requirement? Is it possible to perform in R? Many thanks, Savani I am doing an analysis of large data set. I have ...
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217 views

Does likelihood ratio test control for overfitting?

I have two nested logistic regression models, A and B. A is nested under B. Let's say B has $K$ more features than A. B has a higher log likelihood than A. However the improved likelihood of B is due ...
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How to compare seed count for tree species at different depths?

I want to investigate the difference in seed count between three different tree species at three soil depth levels. For each tree specie I have 10 trees and for each tree I have five soil samples at ...
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1answer
27 views

Are these glm models nested?

I am not able to tell if these two glm models are nested within one another. This is from the "mack" dataset in the R library "gamair". ...
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30 views

How to perform a nested or hierarchical ordinal logistic regression in SPSS

I have one outcome/dependent variable that can be ordinal or nominal and 3 independent variables. I have learned so far how to perform ordinal and multinomial logistic regression in SPSS between a ...
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1answer
51 views

Three-level partially nested model

I am modeling change over time in group psychotherapy subjects using R and lme4. My data have the following structure: subject (id) time (code 1-10 for equally spaced repeated measures) outcome (for ...
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1answer
25 views

Nested Anova vs Multilevel Linear Models

I am working on a problem which revolves around individual axons / nerve cells in two treatment conditions. All relevant questions are clearly on the axon level, and dependent on properties (size, ...
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AIC and nested models

There is a related question here but two highly upvoted answers there don't seem to agree with each other, and in any case I wanted to take a different tack. Is AIC useful for comparing: non-nested ...
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17 views

Nested fixed effects?

I have a question about an analysis that I thought would be really simple, but turned out to be a bit more complicated (or maybe I am just overcomplicating it/ my stats skills are insufficient, that's ...
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23 views

Nested random factors in GLMM: use them or drop them?

I am a new R user running into GLMM models. I have some data of frequency of pollinators in crop fields adjacent to forest fragments, with the following experimental design: 4 forest fragments, 2 of ...
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14 views

Correct model for mix of nested and split-plot design in R?

I'm struggling to create the right model to analyze the treatment effects on my response variable in a recent field experiment. I believe I have a somewhat confusing mixture of nested and split plot ...
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30 views

Nested Manova with random nested factor won't run!

I'm running a multivariate analysis on a nested design with a random factor (Site) nested within a fixed factor (Region), with five dependent morphological variables. I have two sites within each of ...
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52 views

Split-Split-Plot or nested ANOVA using lme

I have a simple design but I do not know how to handle it. I have a nested anova (or a split-split-plot anova). I have three grazing treatments (Grazing, coded as Gra1, Gra2, Gra3), replicated each ...
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1answer
47 views

Nesting terminology in lmer

Suppose I have the following nested lmer structure: lmer(Y ~ X1 + X2 + X1:X2 + (1 | A) + (1 | A:B), data=d) which is the same ...
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14 views

Analyzing nested categorical data

I need to compare binary responses (nectar present/absent) between flowers of two treatments ("y" and "n"). This seems like a straight forward case for a Chi-square test, however- my design involved a ...
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outlier in Nested ANOVA in Gage R&R

is there any specific method to identify outliers and reduce their impact in ANOVA on Nested design because I have Nested design on Gage R&R which contains 4 outliers in 3 operators . Thanks
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Am I correctly assessing these linear mixed effects?

Using R - lmer() calls and anova() to compare models. 12 images are rated by participants for quality. They are divided (based on previous data) into High Quality and Low Quality images (6 each) - ...
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1answer
33 views

Binomial test with nested data

I hope to compare the proportion of "IN" & "OUT" outcomes in my data. I would have used a simple binomial test (our hypothesis is that the subjects are more likely to endorse "OUT" than "IN") but ...
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1answer
30 views

How to test repeated, nested, count data

I have samples from an experiment in which I have counted cells. I took 2 pictures of each kidney, photographing both kidneys of each subject. Each individual belongs to a group (infection). My ...
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69 views

Using lme4 correctly for a nested mixed model

I'm trying to create a nested model in lme4 and would like feedback on whether I've understood its use correctly. Every individual (n = 144) had two proteins measured after 0, 12 and 72 hours. At ...
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24 views

Comparison between different models: hierarchical models and model with dummy

I have these three models: M0<-glm(y=="yes"~x+z+b+c+r+as.factor(w),family="binomial") 'logLik' -1147.734 (df=65) ...
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28 views

Mixed model with clustered and repeated-measures data

I'm analysing the results of an experiment using a mixed model. Reaction times for each subject (40 male and 40 female) to 8 stimuli have been registered. The process has been repeated on the same ...
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11 views

Are these CFA models nested?

I am currently fitting and comparing models with ordinal DV. I want to test the following two models: 2factor <- f1 =~ item1 + item2 + item3 + item4 f2 =~ item5 + item6 + item7 3factor <- f1a ...
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25 views

How to test whether my models are nested or non-nested?

I have built two models (linear probabilty and logit) in order to decribe certain variable. How can figure out whether they are nested or not? UPD The idea that I am pursuing is to measure how ...
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47 views

How to specify a simple model in lmer/lme4: do I need explicit nesting?

I am measuring response time RT_log for 3 experimental manipulations (Conditions), and there are 4 ...
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1answer
22 views

Binomial test for nested data

I have 100 subjects who were scored on their performance in a series of trials (binary outcome for each trial: "hit" or "miss"). I want to find out whether overall there are more "hit" than "miss" ...
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1answer
39 views

Random effects, fixed effects, or perhaps nested fixed effects?

Simple question (I hope). I have the following experimental design: Two groups: A, B (let's say they represent the two sexes), where I randomly sampled 4 subjects from each group, and measured blood ...
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26 views

What analysis is appropriate for binary outcomes nested within individuals?

I'm working on my FYP & want to find out if my manipulation (condition: priming v.s. no priming) has any effect on distribution outcome (binary outcomes: 1-1 FAIR split; 2-0 UNFAIR split). Each ...
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42 views

Performing a 2-1-1 multilevel mediation in r

I'm interested in the relationships between the following three variables: religiosity, teleological explanations of daily events, and gratitude resulting from those events. I have collected data ...
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10 views

nested logit interpret coefs

how do I get the odds ratio from a coefficient of a nested logit. I know for multinomial logit, the exp of the coeff of a binary independent variable is the odds ratio. is that true for nested logit?
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35 views

Linear Mixed Model with 3 variables

I would appreciate some assistance with setting the statistical analyses of my experiment. During my experiment 14 participant's motor responses (ptp) were tested ...
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1answer
117 views

Crossed fixed effects model specification including nesting and repeated measures using glmm in R

Background: I am interested in looking at the effects that Culture, Treatment and Time ...
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22 views

Using nested CV

Of I use a nested CV for a especific dataset, can be possible a MSE selection (MSE obtain from the inner loop) be lower than the MSE assessment (MSE obtain from the outer loop using the model selected ...
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1answer
164 views

Nested random effects in lme4 R

Background: I have data on time to infection across multiple sites across a gradient. The design involves 2 latitudes (In and Out) with sites 1 and 2 nested within “In” and sites 3 and 4 nested within ...
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1answer
88 views

Interpretation of two glm model summaries

I am using the Titanic dataset to understand glm model. These are the two models, ...
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2answers
153 views

mixed effects and lme4: Do I need nesting?

I am analyzing data from a field experiment, and I am interested in the effects of fauna and altitude (fixed). Altitude has two levels, and at each site I have 5 blocks for the three levels of fauna ...
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42 views

How can you interpert the percent of variance explained by additional values with Nagelkerke's r^2

I have Nagelkerke's R^2 for two Poisson regression models, model A contains several predictors while model B contains all the predictors of A plus a couple extra. Would it be correct to say that the ...
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1answer
44 views

Why is this nested?

Is it fair to compare two models one with one of the predictors treated as a continuous variable and in the other, you treat it as categorical variable using ANOVA? Can we call the first model nested ...
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Syntax for unbalanced block design with nesting

I am trying to run a model in which I have site as a blocking factor, and two layers of nested random effects due to sub-sampling. The nesting layers are-> plant[flower[robbing status]]. My response ...
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23 views

help with lme() for nested random effects factors [duplicate]

this is a fairly basic question, but I have spent all day trying to figure it out (including reading other questions on this page), and I could really use some help. I am trying to run a simple mixed ...
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1answer
49 views

Nested Cross-Validation for fitting methods that use CV themselves

tl;dr: If I am using fitting methods that use CV to set their hyper-parameters, is nested CV actually 3 loops deep? Imagine you have two very simple OLS candidate models: $Y \sim X$ and $Y \sim X + ...
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1answer
96 views

Mixed model with partial nesting/partial repeating

Imagine this structure of data: Each row contains a value for: student_ID, class_ID, teacher_ID, student_Gender, teacher_Gender, submitted_Evalution The DV of interest is submitted_Evaluation, a ...
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32 views

Multilevel Analysis and Nested effects in lme4 package

I have a question regarding multilevel analysis and nested effect. I have an ordinal score from a single item questionnaire from each participants in line that I would like to correlate to the GINI by ...
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26 views

Fitting a nested model in SAS: maximum likelihood vs method of moments

I'm analyzing a nested design model in SAS (using proc mixed), but I'm not sure if I should be using restricted maximum ...
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0answers
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How do I test for separate means in a small nested data set?

My observations are grouped into 3 groups, each of these 3 groups has 2 subgroups, I have 2 observations from each subgroup. Each group appears quite well divided from each other group, and each ...
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39 views

How to structure dataset and write syntax for mediation model with clustered data?

I have a dataset of 300+ students with teacher-reported data. There are 17 total teachers that reported data on the students. I would like to run a model that tests mediation where the mediator is a ...
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31 views

Correct specification of a nested mixed effect model in lmer

I have experiments where we tested 4 substances at different days. We have substance 1 tested 10 times at day 1, substance 1 tested 10 times at day 2, substance 2 tested 10 times at day 3, etc. We see ...