Nebulosa
Single-Cell Data Visualisation Using Kernel Gene-Weighted Density Estimation
Bioconductor version: 3.23 · Package version: 1.22.0
This package provides a enhanced visualization of single-cell data based on gene-weighted density estimation. Nebulosa recovers the signal from dropped-out features and allows the inspection of the joint expression from multiple features (e.g. genes). Seurat and SingleCellExperiment objects can be used within Nebulosa.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Nebulosa") Details
| Maintainer | Jose Alquicira-Hernandez <alquicirajose@gmail.com> |
| Author | Jose Alquicira-Hernandez [aut, cre] (ORCID: <https://orcid.org/0000-0002-9049-7780>) |
| License | GPL-3 |
| URL | https://github.com/powellgenomicslab/Nebulosa |
| Bug Reports | https://github.com/powellgenomicslab/Nebulosa/issues |
| Downloads rank | 1580 |
| Source branch | RELEASE_3_23 |
| biocViews | DimensionReduction, GeneExpression, SingleCell, Software, Visualization |
Documentation
- Visualization of gene expression with Nebulosa
- Visualization of gene expression with Nebulosa (in Seurat)
Download
Dependencies
Depends: R (>= 4.0), ggplot2, patchwork
Imports: SingleCellExperiment, SummarizedExperiment, SeuratObject, ks, Matrix, stats, methods, ggrastr
Suggests: testthat, BiocStyle, knitr, rmarkdown, covr, scater, scran, DropletUtils, igraph, BiocFileCache, Seurat
Reverse dependencies
Suggests Me (2): scCustomize, SCpubr