expression_settings_validation

datasets

This package allows you the investigate intercellular communication from a computational perspective. More specifically, it allows to investigate how interacting cells influence each other's gene expression. Functionalities of this package (e.g. including predicting extracellular upstream regulators and their affected target genes) build upon a probabilistic model of ligand-target links that was inferred by data-integration.

Robin Browaeys

nichenetr

NicheNet: Modeling Intercellular Communication by Linking Ligands to Target Genes

expression_settings_validation function

A list<dl class="dl-horizontal">
 <dt>diffexp</dt><dd></dd><dt>lfc</dt><dd>Log fold change (treated vs untreated)</dd>
 <dt>qval</dt><dd>Fdr corrected p-value</dd>
 <dt>gene</dt><dd>Gene symbol</dd><dt>from</dt><dd>Gene symbol(s) of ligand(s) by which the cells were treated</dd>
 <dt>name</dt><dd>Name of the expression validation dataset</dd>
 <dt>type</dt><dd>Type of dataset based on response time: "primary", "secondary", "primary + secondary"</dd>
 </dl>

expression_settings_validation: Expression datasets for validation

Description

Usage

Arguments

Format