AnchorSet-class

AnchorSet

The AnchorSet class is an intermediate data storage class that stores the anchors and other
related information needed for performing downstream analyses - namely data integration
(<code><a rd-options="" href="/link/IntegrateData?package=Seurat&version=3.1.1" data-mini-rdoc="Seurat::IntegrateData">IntegrateData</a></code>) and data transfer (<code><a rd-options="" href="/link/TransferData?package=Seurat&version=3.1.1" data-mini-rdoc="Seurat::TransferData">TransferData</a></code>).

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>, and Butler A and Satija R (2017) <doi:10.1101/164889> for more details.

Paul Hoffman

Seurat

Tools for Single Cell Genomics

Rahul Satija

Andrew Butler

Tim Stuart

Jeff Farrell

Shiwei Zheng

Christoph Hafemeister

Patrick Roelli

Yuhan Hao

AnchorSet-class function

<dl class="dl-horizontal">
<dt><code>object.list</code></dt><dd>List of objects used to create anchors</dd></dl><dt><code>reference.cells</code></dt><dd>List of cell names in the reference dataset - needed when performing data
transfer.</dd><dt><code>reference.objects</code></dt><dd>Position of reference object/s in object.list</dd><dt><code>query.cells</code></dt><dd>List of cell names in the query dataset - needed when performing data transfer</dd><dt><code>anchors</code></dt><dd>The anchor matrix. This contains the cell indices of both anchor pair cells, the
anchor score, and the index of the original dataset in the object.list for cell1 and cell2 of
the anchor.</dd><dt><code>offsets</code></dt><dd>The offsets used to enable cell look up in downstream functions</dd><dt><code>anchor.features</code></dt><dd>The features used when performing anchor finding.</dd><dt><code>command</code></dt><dd>Store log of parameters that were used</dd>

Slots

The AnchorSet class is an intermediate data storage class that stores the anchors and other
related information needed for performing downstream analyses - namely data integration
(<code><a rd-options='' href='IntegrateData'>IntegrateData</a></code>) and data transfer (<code><a rd-options='' href='TransferData'>TransferData</a></code>).

The AnchorSet Class — AnchorSet-class

The AnchorSet Class

AnchorSet-class: The AnchorSet Class

Description

Arguments

Slots