Neighbor-class

Neighbor

The Neighbor class is used to store the results of neighbor finding
algorithms

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> for
more details.

Paul Hoffman

SeuratObject

Data Structures for Single Cell Data

Rahul Satija

Andrew Butler

Tim Stuart

Jeff Farrell

Shiwei Zheng

Christoph Hafemeister

Patrick Roelli

Yuhan Hao

Neighbor-class function

<dl class="dl-horizontal">
<dt><code>nn.idx</code></dt><dd>Matrix containing the nearest neighbor indices</dd></dl><dt><code>nn.dist</code></dt><dd>Matrix containing the nearest neighbor distances</dd><dt><code>alg.idx</code></dt><dd>The neighbor finding index (if applicable). E.g. the annoy
index</dd><dt><code>alg.info</code></dt><dd>Any information associated with the algorithm that may be
needed downstream (e.g. distance metric used with annoy is needed when
reading in from stored file).</dd><dt><code>cell.names</code></dt><dd>Names of the cells for which the neighbors have been
computed.</dd>

Slots

The Neighbor class — Neighbor-class

The Neighbor class

Neighbor-class: The Neighbor class

Description

Arguments

Slots