foxp2

A simulated data set of the original FoxP2 data set, which contains
the sequences of syllables sung by male mice of
different genotypes under various social contexts.

datasets

The Bayesian Markov renewal mixed models take sequentially observed categorical data with continuous duration times, being either state duration or inter-state duration. These models comprehensively analyze the stochastic dynamics of both state transitions and duration times under the influence of multiple exogenous factors and random individual effect. The default setting flexibly models the transition probabilities using Dirichlet mixtures and the duration times using gamma mixtures. It also provides the flexibility of modeling the categorical sequences using Bayesian Markov mixed models alone, either ignoring the duration times altogether or dividing duration time into multiples of an additional category in the sequence by a user-specific unit. The package allows extensive inference of the state transition probabilities and the duration times as well as relevant plots and graphs. It also includes a synthetic data set to demonstrate the desired format of input data set and the utility of various functions. Methods for Bayesian Markov renewal mixed models are as described in: Abhra Sarkar et al., (2018) <doi:10.1080/01621459.2018.1423986> and Yutong Wu et al., (2022) <doi:10.1093/biostatistics/kxac050>.

Yutong Wu

BMRMM

An Implementation of the Bayesian Markov (Renewal) Mixed Models

Abhra Sarkar

foxp2 function

A data frame with 17391 rows and 6 variables:<dl>
<dt>Id</dt>
<dd>Mouse Id</dd><dt>Genotype</dt>
<dd>Genotype of the mouse, 1 = FoxP2 knocked out, 2 = wild type</dd><dt>Context</dt>
<dd>Social context for the mouse, 1 = U (urine sample placed in the cage), 2 = L (living female mouse placed in the cage), 3 = A (an anesthetized female placed on the lid of the cage)</dd><dt>Prev_State</dt>
<dd>The previous syllable, {1,2,3,4} = {d,m,s,u}</dd><dt>Cur_State</dt>
<dd>The current syllable, {1,2,3,4} = {d,m,s,u}</dd><dt>Transformed_ISI</dt>
<dd>Modified inter-syllable interval times, log(original ISI + 1)</dd>
</dl>

Format

Simulated FoxP2 Data Set. — foxp2

A data frame with 17391 rows and 6 variables:<dl>
<dt>Id</dt>
<dd>Mouse Id</dd>

<dt>Genotype</dt>
<dd>Genotype of the mouse, 1 = FoxP2 knocked out, 2 = wild type</dd>

<dt>Context</dt>
<dd>Social context for the mouse, 1 = U (urine sample placed in the cage), 2 = L (living female mouse placed in the cage), 3 = A (an anesthetized female placed on the lid of the cage)</dd>

<dt>Prev_State</dt>
<dd>The previous syllable, {1,2,3,4} = {d,m,s,u}</dd>

<dt>Cur_State</dt>
<dd>The current syllable, {1,2,3,4} = {d,m,s,u}</dd>

<dt>Transformed_ISI</dt>
<dd>Modified inter-syllable interval times, log(original ISI + 1)</dd>


</dl>

foxp2: Simulated FoxP2 Data Set.

Description

Usage

Arguments

Format

References