model_gen

Generate appropriate regression models based on the model type and formula

Provides a comprehensive framework for batch effect diagnostics, harmonization, and post-harmonization downstream analysis. Features include interactive visualization tools, robust statistical tests, and a range of harmonization techniques. Additionally, 'ComBatFamQC' enables the creation of life-span age trend plots with estimated age-adjusted centiles and facilitates the generation of covariate-corrected residuals for analytical purposes. Methods for harmonization are based on approaches described in Johnson et al., (2007) <doi:10.1093/biostatistics/kxj037>, Beer et al., (2020) <doi:10.1016/j.neuroimage.2020.117129>, Pomponio et al., (2020) <doi:10.1016/j.neuroimage.2019.116450>, and Chen et al., (2021) <doi:10.1002/hbm.25688>.

Zheng Ren

ComBatFamQC

Comprehensive Batch Effect Diagnostics and Harmonization

Andrew Chen

Elizabeth Horwath

model_gen function

<dl><dt>y</dt>
<dd>Dependent variable in the model.</dd>
<dt>type</dt>
<dd>A model function name that is used or to be used in the ComBatFamily Package (eg: "lmer", "lm", "gam").</dd>
<dt>batch</dt>
<dd>Name of batch variable (often equivalent to site or scanner).</dd>
<dt>covariates</dt>
<dd>Name of covariates supplied to <code>model</code>.</dd>
<dt>interaction</dt>
<dd>Expression of interaction terms supplied to <code>model</code> (eg: "age:diagnosis").</dd>
<dt>random</dt>
<dd>Variable name of a random effect in linear mixed effect model.</dd>
<dt>smooth</dt>
<dd>Variable name that requires a smooth function.</dd>
<dt>df</dt>
<dd>Dataset to be harmonized.</dd></dl>

Arguments

Model Generations — model_gen

<dl>

<dt>y</dt>
<dd>Dependent variable in the model.</dd>


<dt>type</dt>
<dd>A model function name that is used or to be used in the ComBatFamily Package (eg: "lmer", "lm", "gam").</dd>


<dt>batch</dt>
<dd>Name of batch variable (often equivalent to site or scanner).</dd>


<dt>covariates</dt>
<dd>Name of covariates supplied to <code>model</code>.</dd>


<dt>interaction</dt>
<dd>Expression of interaction terms supplied to <code>model</code> (eg: "age:diagnosis").</dd>


<dt>random</dt>
<dd>Variable name of a random effect in linear mixed effect model.</dd>


<dt>smooth</dt>
<dd>Variable name that requires a smooth function.</dd>


<dt>df</dt>
<dd>Dataset to be harmonized.</dd>

</dl>

model_gen: Model Generations

Description

Usage

Value

Arguments

Examples