createscCATCH

create scCATCH object using single-cell count data and cluster information.

An automatic cluster-based annotation pipeline based on evidence-based score by matching the marker genes with known cell markers in tissue-specific cell taxonomy reference database for single-cell RNA-seq data. See Shao X, et al (2020) <doi:10.1016/j.isci.2020.100882> for more details.

Xin Shao

scCATCH

Single Cell Cluster-Based Annotation Toolkit for Cellular
Heterogeneity

createscCATCH function

<dl><dt>data</dt>
<dd>A matrix or dgCMatrix containing normalized single-cell RNA-seq data, each column representing a cell, each row representing a gene. See <code>demo_data</code>.</dd>
<dt>cluster</dt>
<dd>A character containing the cluster information for each cell. The length of it must be equal to the ncol of the data.</dd></dl>

Arguments

scCATCH object — createscCATCH

<dl>

<dt>data</dt>
<dd>A matrix or dgCMatrix containing normalized single-cell RNA-seq data, each column representing a cell, each row representing a gene. See <code>demo_data</code>.</dd>


<dt>cluster</dt>
<dd>A character containing the cluster information for each cell. The length of it must be equal to the ncol of the data.</dd>

</dl>

createscCATCH: scCATCH object

Description

Usage

Value

Arguments