merge.SCTAssay

A toolkit for quality control, analysis, and exploration of single cell RNA sequencing data. 'Seurat' aims to enable users to identify and interpret sources of heterogeneity from single cell transcriptomic measurements, and to integrate diverse types of single cell data. See Satija R, Farrell J, Gennert D, et al (2015) <doi:10.1038/nbt.3192>, Macosko E, Basu A, Satija R, et al (2015) <doi:10.1016/j.cell.2015.05.002>, Stuart T, Butler A, et al (2019) <doi:10.1016/j.cell.2019.05.031>, and Hao, Hao, et al (2020) <doi:10.1101/2020.10.12.335331> for more details.

Paul Hoffman

Seurat

Tools for Single Cell Genomics

Andrew Butler

Saket Choudhary

Charlotte Darby

Jeff Farrell

Isabella Grabski

Christoph Hafemeister

Yuhan Hao

Austin Hartman

Jaison Jain

Longda Jiang

Madeline Kowalski

Skylar Li

Gesmira Molla

Efthymia Papalexi

Patrick Roelli

Rahul Satija

Karthik Shekhar

Avi Srivastava

Tim Stuart

Kristof Torkenczy

Shiwei Zheng

Satija Lab and Collaborators 

merge.SCTAssay function

<dl><dt>x</dt>
<dd>A <code>Seurat</code> object</dd>
<dt>y</dt>
<dd>A single <code>Seurat</code> object or a list of <code>Seurat</code> objects</dd>
<dt>add.cell.ids</dt>
<dd>A character vector of <code>length(x = c(x, y))</code>;
appends the corresponding values to the start of each objects' cell names</dd>
<dt>merge.data</dt>
<dd>Merge the data slots instead of just merging the counts
(which requires renormalization); this is recommended if the same
normalization approach was applied to all objects</dd>
<dt>na.rm</dt>
<dd>If na.rm = TRUE, this will only preserve residuals that are
present in all SCTAssays being merged. Otherwise, missing residuals will be
populated with NAs.</dd>
<dt>...</dt>
<dd>Arguments passed to other methods</dd></dl>

Arguments

Merge SCTAssay objects — merge.SCTAssay

<dl>

<dt>x</dt>
<dd>A <code>Seurat</code> object</dd>


<dt>y</dt>
<dd>A single <code>Seurat</code> object or a list of <code>Seurat</code> objects</dd>


<dt>add.cell.ids</dt>
<dd>A character vector of <code>length(x = c(x, y))</code>;
appends the corresponding values to the start of each objects' cell names</dd>


<dt>merge.data</dt>
<dd>Merge the data slots instead of just merging the counts
(which requires renormalization); this is recommended if the same
normalization approach was applied to all objects</dd>


<dt>na.rm</dt>
<dd>If na.rm = TRUE, this will only preserve residuals that are
present in all SCTAssays being merged. Otherwise, missing residuals will be
populated with NAs.</dd>


<dt>...</dt>
<dd>Arguments passed to other methods</dd>

</dl>

Merge SCTAssay objects

merge.SCTAssay: Merge SCTAssay objects

Description

Usage

Arguments