miniclo

Provides scalable generalized linear and mixed effects models tailored for sequence count data analysis (e.g., analysis of 16S or RNA-seq data). Uses Dirichlet-multinomial sampling to quantify uncertainty in relative abundance or relative expression conditioned on observed count data.
Implements scale models as a generalization of normalizations which account for uncertainty in scale (e.g., total abundances) as described in Nixon et al. (2025) <doi:10.1186/s13059-025-03609-3> and McGovern et al. (2025) <doi:10.1101/2025.08.05.668734>.

Justin Silverman

ALDEx3

Linear Models for Sequence Count Data

Greg Gloor

Kyle McGovern

miniclo function

<dl><dt>X</dt>
<dd>should be a D x N matrix, closes along the D dimension</dd></dl>

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Author

Closure operation — miniclo

<dl>

<dt>X</dt>
<dd>should be a D x N matrix, closes along the D dimension</dd>

</dl>

miniclo: Closure operation

Description

Usage

Value

Arguments

Author