estimateProb

Estimate the empirical probability of whether two set of cells
from distinct batches belong to the same population

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 Single-Cell Data Integration and Evaluation

Christopher Yau

estimateProb function

<dl><dt>seu</dt>
<dd>A Seurat object</dd>
<dt>ider</dt>
<dd>The output list of function `getIDEr`.</dd>
<dt>n_size</dt>
<dd>Number of cells per group used to compute the similarity. Default: 40</dd>
<dt>n.perm</dt>
<dd>Numeric. Time of permutations.</dd>
<dt>verbose</dt>
<dd>Boolean. Print out progress or not. (Default: FALSEW)</dd></dl>

Arguments

Estimate the empirical probability of whether two set of cells
from distinct batches belong to the same population — estimateProb

<dl>

<dt>seu</dt>
<dd>A Seurat object</dd>


<dt>ider</dt>
<dd>The output list of function `getIDEr`.</dd>


<dt>n_size</dt>
<dd>Number of cells per group used to compute the similarity. Default: 40</dd>


<dt>n.perm</dt>
<dd>Numeric. Time of permutations.</dd>


<dt>verbose</dt>
<dd>Boolean. Print out progress or not. (Default: FALSEW)</dd>

</dl>

estimateProb: Estimate the empirical probability of whether two set of cells from distinct batches belong to the same population

Description

Usage

Value

Arguments

See Also