Scenic Dot Plot

Creates an enhanced dot plot for visualizing gene expression across different cell types or clusters in single-cell data, with support for split visualization.

vignettesSCENIC.mdtitle quotSCENIC for Gene Regulatory Networks Analysisquot author quotYichao Huaquot date quot2024-11-28quot version quotSeuratExtend v1.1.0quot Table of Contents Importing SCENIC Loom Files into Seurat Visualizing SCENIC Results Importing SCENIC Loom Files into Seurat SCENIC Single-Cell Regulatory Network Inference and Clustering is a computational method that provides deep insights into the

SCENIC Single-Cell rEgulatory Network Inference and Clustering is a computational method to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data. The description of the method and some usage examples are available in Nature Methods 2017. There are currently implementations of SCENIC in R this repository, in Python pySCENIC, as well as wrappers to automate

SCENIC is a comprehensive toolbox for inferring and analyzing enhancer-driven gene regulatory networks using single-cell multiomic data.

SCENIC analysis of exhausted monocyte scRNA-seq data A Dot plot for SCENIC transcription factor motif enrichment in WT and Ticam2 BMMCs following PBS control or repetitive LPS stimulation.

This book is a collection for pre-processing and visualizing scripts for single cell milti-omics data. The data is downsampled from a real dataset.

SCENICpySCENIC regulonsregulonsTFregulons SCENICplotRSSRSSregulonsRSS

5.8k511SCENIC_scenic

Intuitive way of visualizing how feature expression changes across different identity classes clusters. The size of the dot encodes the percentage of cells within a class, while the color encodes the AverageExpression level across all cells within a class blue is high.

show_dot_plot bool, optional - Whether to show dots in plot show_line_plot bool, optional - Whether to show line fitting to plot color_dict Dict, optional - Color dictionary to specify colors subset List, optional - Subset of pseudobulkscells to use seed int - Seed to ensure that pseudobulk are reproducible.