fortify-Spatial

fortify.Centroids

fortify

fortify.Molecules

fortify.Segmentation

Prepare Coordinates for Spatial Plots

internal

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 

fortify-Spatial function

<dl><dt>model</dt>
<dd>A <code>Segmentation</code>,
<code>Centroids</code>,
or <code>Molecules</code> object</dd>
<dt>data</dt>
<dd>Extra data to be used for annotating the cell segmentations; the
easiest way to pass data is a one-column
<code><a href="/link/data%20frame?package=Seurat&version=5.0.3" data-mini-rdoc="Seurat::data frame">data frame</a></code> with the values to color by and
the cell names are rownames</dd>
<dt>...</dt>
<dd>Arguments passed to other methods</dd></dl>

Arguments

Prepare Coordinates for Spatial Plots — fortify-Spatial

<dl>

<dt>model</dt>
<dd>A <code>Segmentation</code>,
<code>Centroids</code>,
or <code>Molecules</code> object</dd>


<dt>data</dt>
<dd>Extra data to be used for annotating the cell segmentations; the
easiest way to pass data is a one-column
<code><a href='https://rdrr.io/r/base/data.frame.html'>data frame</a></code> with the values to color by and
the cell names are rownames</dd>


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

</dl>

Prepare Coordinates for Spatial Plots

fortify-Spatial: Prepare Coordinates for Spatial Plots

Description

Usage

Arguments