getGroupFit

This function calculates the IDER-based similarity between two groups using a linear model.

A workflow of (a) meta-clustering based on
inter-group similarity measures and (b) a ground-truth-free test metric to
assess the biological correctness of integration in real datasets. See Hu Z,
Ahmed A, Yau C (2021) <doi:10.1101/2021.03.29.437525> for
more details.

Zhiyuan Hu

CIDER

Meta-Clustering for scRNA-Seq Integration and Evaluation

Christopher Yau

Ahmed Ahmed

getGroupFit function

<dl><dt>logCPM</dt>
<dd>A numeric matrix of log-transformed counts per million.</dd>
<dt>design</dt>
<dd>A design matrix for the differential expression analysis.</dd>
<dt>contrast_m</dt>
<dd>A contrast matrix specifying the comparison between the two groups.</dd></dl>

Arguments

Calculate IDER-Based Similarity Between Two Groups — getGroupFit

<dl>

<dt>logCPM</dt>
<dd>A numeric matrix of log-transformed counts per million.</dd>


<dt>design</dt>
<dd>A design matrix for the differential expression analysis.</dd>


<dt>contrast_m</dt>
<dd>A contrast matrix specifying the comparison between the two groups.</dd>

</dl>

getGroupFit: Calculate IDER-Based Similarity Between Two Groups

Description

Usage

Value

Arguments