ModalityWeights-class

ModalityWeights

The ModalityWeights class is an intermediate data storage class that stores the modality weight and other
related information needed for performing downstream analyses - namely data integration
(<code>FindModalityWeights</code>) and data transfer (<code>FindMultiModalNeighbors</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>, 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 

ModalityWeights-class function

<dl>
<dt><code>modality.weight.list</code></dt>
<dd>A list of modality weights value from all modalities</dd></dl>
<dt><code>modality.assay</code></dt>
<dd>Names of assays for the list of dimensional reductions</dd>
<dt><code>params</code></dt>
<dd>A list of parameters used in the FindModalityWeights</dd>
<dt><code>score.matrix</code></dt>
<dd>a list of score matrices representing cross and within-modality prediction
score, and kernel value</dd>
<dt><code>command</code></dt>
<dd>Store log of parameters that were used</dd>

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The ModalityWeights Class — ModalityWeights-class

<dl>
<dt><code>modality.weight.list</code></dt>
<dd>A list of modality weights value from all modalities</dd>


<dt><code>modality.assay</code></dt>
<dd>Names of assays for the list of dimensional reductions</dd>


<dt><code>params</code></dt>
<dd>A list of parameters used in the FindModalityWeights</dd>


<dt><code>score.matrix</code></dt>
<dd>a list of score matrices representing cross and within-modality prediction
score, and kernel value</dd>


<dt><code>command</code></dt>
<dd>Store log of parameters that were used</dd>


</dl>

The ModalityWeights Class

ModalityWeights-class: The ModalityWeights Class

Description

Arguments

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