merTools | Convenience functions for working with merMod objects | Development Tools library

by jknowles R Version: v0.5 License: No License

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kandi X-RAY | merTools Summary

merTools is a R library typically used in Utilities, Development Tools applications. merTools has no bugs, it has no vulnerabilities and it has low support. You can download it from GitHub.

A package for getting the most of our multilevel models in R. by Jared E. Knowles and Carl Frederick. Working with generalized linear mixed models (GLMM) and linear mixed models (LMM) has become increasingly easy with advances in the lme4 package. As we have found ourselves using these models more and more within our work, we, the authors, have developed a set of tools for simplifying and speeding up common tasks for interacting with merMod objects from lme4. This package provides those tools.

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merTools has a low active ecosystem.

It has 101 star(s) with 16 fork(s). There are 9 watchers for this library.

It had no major release in the last 12 months.

There are 12 open issues and 84 have been closed. On average issues are closed in 173 days. There are no pull requests.

It has a neutral sentiment in the developer community.

The latest version of merTools is v0.5

Quality

merTools has no bugs reported.

Security

merTools has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.

License

merTools does not have a standard license declared.

Check the repository for any license declaration and review the terms closely.

Without a license, all rights are reserved, and you cannot use the library in your applications.

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merTools releases are available to install and integrate.

Installation instructions are not available. Examples and code snippets are available.

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merTools Key Features

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merTools Examples and Code Snippets

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Community Discussions

Trending Discussions on merTools

Wrangling results from simulations

Plotting prediction intervals for mixed effects model

lmer errors and predict function in R v 3.6.1 / obtain confidence intervals from lmer model for a given independent variable

Error: 'shuffle' is not an exported object from 'namespace:merTools'

Why are the coinfidence intervals predicted by arm::sim vs merTools::predictInterval different?

confidence intervals of estimates in mixed models

Confidence Interval in mixed effect models

Meaning of components in merTools::predictInterval

Drawing a quadratic function in mixed effect model

QUESTION

Wrangling results from simulations

Asked 2021-Mar-26 at 13:27

I'm pretty new to R, and I'm trying to learn how to do some simulations. Currently I have a program that does the following:

In one function, uses a DGP to create fake data, which is returned as a tibble
In another function, randomly assign fake observations to treatment
In the final function, merge random assignment results with fake data and run regression. I return a list that includes the estimate and p-value using the below code

...

ANSWER

Answered 2021-Mar-26 at 13:27

Use can use map_df from the purrr package (part of tidyverse):

Source https://stackoverflow.com/questions/66816926

QUESTION

Plotting prediction intervals for mixed effects model

Asked 2019-Aug-21 at 13:00

I have implemented a mixed effects model for my experiment for how error rate affects reaction time. I now want to calculate prediction intervals and then plot them.

Here is an example of my df

...

ANSWER

Answered 2019-Aug-21 at 13:00

One way to have a line connecting the error_rate values without the vertical lines, is to plot mean values of the y variable fit. This is done with stat_summary as below.

Source https://stackoverflow.com/questions/57591723

QUESTION

lmer errors and predict function in R v 3.6.1 / obtain confidence intervals from lmer model for a given independent variable

Asked 2019-Jul-18 at 20:46

This is two questions in one, I hope this is OK.

First, I am trying to obtain confidence interval values from an lmer object from the lme4 package. I've previously used R v 3.4.4 and the models run just fine, and I can find and display the confidence intervals for the mean fit on the plot. I've recently upgraded to R v 3.6.1, and am now getting an error message when using the predict function. I've shown this below as part of the code

My main question is, how do I calculate the upper and lower confidence limits for a given value? For traditional lm I would use:

...

ANSWER

Answered 2019-Jul-18 at 20:46

I figured out how to determine CI values. Hopefully others may benefit from the solution. As usual, it was quite simple.

First, round the CIs to 0 d.p

Source https://stackoverflow.com/questions/57090362

QUESTION

Error: 'shuffle' is not an exported object from 'namespace:merTools'

Asked 2019-Jul-08 at 11:45

I am trying to shuffle my dataset by row and I have found function shuffle in package merTools. The code looks like this:

...

ANSWER

Answered 2019-Jun-21 at 08:03

May be it is an unexported function

Source https://stackoverflow.com/questions/56699083

QUESTION

Why are the coinfidence intervals predicted by arm::sim vs merTools::predictInterval different?

Asked 2019-Jan-03 at 18:55

I'm comparing the confidence-interval (CI)s produced by arm's sim() function and predictInterval() from merTools. I'm using the sleepstudy dataset from lme4 as an example. I am expecting the same result from the two methods but that is not the case. What is the fundamental difference between the two methods what I am missing?

The code is the following:

importing test data ...

ANSWER

Answered 2019-Jan-03 at 17:21

The merTools CRAN page goes into this (https://cran.r-project.org/web/packages/merTools/vignettes/Using_predictInterval.html), making a direct comparison between sim and predictInterval. Basically, my understanding is that sim ignores uncertainty about the random intercepts, using the mode as a point estimate. The intervals for predictInterval are wider because they account for this additional uncertainty, and are therefore probably more realistic.

Source https://stackoverflow.com/questions/54025382

QUESTION

confidence intervals of estimates in mixed models

Asked 2018-Nov-29 at 11:19

I can get predicted values of a mixed model like this:

...

ANSWER

Answered 2018-Nov-28 at 00:54

Setting which to "fixed" in predictInterval should be enough, but it isn't. So, it looks like a bug. However, along with this parameter if we supply any value for the grouping variable, everything works.

Source https://stackoverflow.com/questions/53439144

QUESTION

Confidence Interval in mixed effect models

Asked 2018-Jul-10 at 13:05

library(lme4)

fm1 <- lmer(Reaction ~ Days + (Days|Subject), data = sleepstudy)

...

ANSWER

Answered 2018-Jul-10 at 13:05

You can get simulated values if you specify newdata in the predictInterval() function.

Source https://stackoverflow.com/questions/51263821

QUESTION

Meaning of components in merTools::predictInterval

Asked 2017-Jul-10 at 13:37

It's not completely clear to me what the merTools::predictInterval function exactly predicts for each component when the which option is set to which = 'all'. For example,

...

ANSWER

Answered 2017-Jul-10 at 13:37

The key is that predictInterval is simulating prediction intervals by drawing from the posterior distribution. The way it presents the components is the result of independent draws for the random, fixed, and combined effects. So while logically they should add up, with measurement error and the variance in the effects themselves, with a finite number of simulations the means or medians of those distributions will not line up to sum to the combined effect.

You can increase n.sims to a very large number (~5000, 10,000) and this gap will be smaller.

But the key issue is that each of those rows is the result of independent draws from the posterior.

Source https://stackoverflow.com/questions/44570044

QUESTION

Drawing a quadratic function in mixed effect model

Asked 2017-Apr-07 at 19:53

It's a bit of a long question so thanks for bearing with me.

Here's my data

https://www.dropbox.com/s/jo22d68a8vxwg63/data.csv?dl=0

I constructed a mixed effect model

...

ANSWER

Answered 2017-Apr-07 at 19:47

I'm not sure where predictInterval comes from, but you can do this with predict. The trick is just to make sure you set your random effects to 0. Here's how you can do that

Source https://stackoverflow.com/questions/43285287

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