[.StdAssay

[&lt;-,StdAssay,character,ANY,ANY-method

internal

Defines S4 classes for single-cell genomic data and associated
information, such as dimensionality reduction embeddings, nearest-neighbor
graphs, and spatially-resolved coordinates. Provides data access methods and
R-native hooks to ensure the Seurat object is familiar to other R users. 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>,
and Stuart T, Butler A, et al (2019) <doi:10.1016/j.cell.2019.05.031>,
Hao Y, Hao S, et al (2021) <doi:10.1016/j.cell.2021.04.048> and
Hao Y, et al (2023) <doi:10.1101/2022.02.24.481684> for
more details.

Paul Hoffman

SeuratObject

Data Structures for Single Cell Data

Rahul Satija

David Collins

Yuhan Hao

Austin Hartman

Gesmira Molla

Andrew Butler

Tim Stuart

Madeline Kowalski

Saket Choudhary

Skylar Li

Longda Jiang

Jeff Farrell

Shiwei Zheng

Christoph Hafemeister

Patrick Roelli

[.StdAssay function

<dl><dt>x</dt>
<dd>An <code>Assay5</code> object</dd>
<dt>i</dt>
<dd>Name of layer data to get or set</dd>
<dt>j</dt>
<dd>Ignored</dd>
<dt>...</dt>
<dd>Arguments passed to <code>LayerData</code></dd>
<dt>value</dt>
<dd>A matrix-like object to add as a new layer</dd></dl>

Arguments

Layer Data — [.StdAssay

<dl>

<dt>x</dt>
<dd>An <code>Assay5</code> object</dd>


<dt>i</dt>
<dd>Name of layer data to get or set</dd>


<dt>j</dt>
<dd>Ignored</dd>


<dt>...</dt>
<dd>Arguments passed to <code>LayerData</code></dd>


<dt>value</dt>
<dd>A matrix-like object to add as a new layer</dd>

</dl>

Layer Data

[.StdAssay: Layer Data

Description

Usage

Value

Arguments

See Also