Nebulosa
This is thereleased version of Nebulosa; for the devel version, seeNebulosa.
Single-Cell Data Visualisation Using Kernel Gene-Weighted Density Estimation
Bioconductor version: Release (3.22)
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.
Author: Jose Alquicira-Hernandez [aut, cre]
ORCID: 0000-0002-9049-7780
Maintainer: Jose Alquicira-Hernandez <alquicirajose at gmail.com>
citation("Nebulosa")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("Nebulosa")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("Nebulosa")| Visualization of gene expression with Nebulosa | HTML | R Script |
| Visualization of gene expression with Nebulosa (in Seurat) | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DimensionReduction,GeneExpression,SingleCell,Software,Visualization |
| Version | 1.20.0 |
| In Bioconductor since | BioC 3.12 (R-4.0) (5 years) |
| License | GPL-3 |
| Depends | R (>= 4.0),ggplot2,patchwork |
| Imports | SingleCellExperiment,SummarizedExperiment,SeuratObject,ks,Matrix, stats, methods,ggrastr |
| System Requirements | |
| URL | https://github.com/powellgenomicslab/Nebulosa |
| Bug Reports | https://github.com/powellgenomicslab/Nebulosa/issues |
See More
| Suggests | testthat,BiocStyle,knitr,rmarkdown,covr,scater,scran,DropletUtils,igraph,BiocFileCache,Seurat |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | scCustomize,SCpubr |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | Nebulosa_1.20.0.tar.gz |
| Windows Binary (x86_64) | Nebulosa_1.20.0.zip |
| macOS Binary (x86_64) | Nebulosa_1.20.0.tgz |
| macOS Binary (arm64) | Nebulosa_1.20.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/Nebulosa |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/Nebulosa |
| Bioc Package Browser | https://code.bioconductor.org/browse/Nebulosa/ |
| Package Short Url | https://bioconductor.org/packages/Nebulosa/ |
| Package Downloads Report | Download Stats |