toyShiny

datasets

An independent, reproducible, and flexible Spatially Resolved Transcriptomics (SRT) simulation framework that can be used to facilitate the development of SRT analytical methods for a wide variety of SRT-specific analyses. It utilizes spatial localization information to simulate SRT expression count data in a reproducible and scalable fashion. Two major simulation schemes are implemented in 'SRTsim': reference-based and reference-free.

Jiaqiang Zhu

SRTsim

Simulator for Spatially Resolved Transcriptomics

Lulu Shang

Xiang Zhou

toyShiny function

A list of shiny output<dl>
<dt>simCount</dt>
<dd>A data frame with 150 rows and 980 columns.</dd><dt>simInfo</dt>
<dd>A data frame with 980 rows and 4 columns: x, y, group, foldchange</dd><dt>simcountParam</dt>
<dd>A list of user-specified parameters for count generation</dd><dt>simLocParam</dt>
<dd>A list of user-specified parameters for pattern design</dd>
</dl>

Format

A toyExample to showcase reference-free simulations — toyShiny

A list of shiny output<dl>
<dt>simCount</dt>
<dd>A data frame with 150 rows and 980 columns.</dd>

<dt>simInfo</dt>
<dd>A data frame with 980 rows and 4 columns: x, y, group, foldchange</dd>

<dt>simcountParam</dt>
<dd>A list of user-specified parameters for count generation</dd>

<dt>simLocParam</dt>
<dd>A list of user-specified parameters for pattern design</dd>


</dl>

toyShiny: A toyExample to showcase reference-free simulations

Description

Usage

Arguments

Format

Examples