schex
Hexbin plots for single cell omics data
Bioconductor version: Release (3.20)
Builds hexbin plots for variables and dimension reduction stored in single cell omics data such as SingleCellExperiment. The ideas used in this package are based on the excellent work of Dan Carr, Nicholas Lewin-Koh, Martin Maechler and Thomas Lumley.
Author: Saskia Freytag [aut, cre], Wancheng Tang [ctb], Zimo Peng [ctb], Jingxiu Huang [ctb]
Maintainer: Saskia Freytag <freytag.s at wehi.edu.au>
citation("schex")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("schex")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("schex")| Seurat_to_SCE | HTML | R Script |
| using_schex | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataImport, DimensionReduction, ImmunoOncology, Sequencing, SingleCell, Software, Visualization |
| Version | 1.20.0 |
| In Bioconductor since | BioC 3.10 (R-3.6) (5 years) |
| License | GPL-3 |
| Depends | SingleCellExperiment(>= 1.7.4), ggplot2 (>= 3.2.1) |
| Imports | hexbin, stats, methods, cluster, dplyr, entropy, ggforce, grid, rlang, concaveman |
| System Requirements | |
| URL | https://github.com/SaskiaFreytag/schex |
| Bug Reports | https://github.com/SaskiaFreytag/schex/issues |
See More
| Suggests | ggrepel, knitr, rmarkdown, testthat (>= 2.1.0), covr, TENxPBMCData, scater, Seurat, shinydashboard, iSEE, igraph, scran, tibble, scuttle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | scTensor, scTGIF |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | schex_1.20.0.tar.gz |
| Windows Binary (x86_64) | schex_1.20.0.zip |
| macOS Binary (x86_64) | schex_1.20.0.tgz |
| macOS Binary (arm64) | schex_1.19.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/schex |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/schex |
| Bioc Package Browser | https://code.bioconductor.org/browse/schex/ |
| Package Short Url | https://bioconductor.org/packages/schex/ |
| Package Downloads Report | Download Stats |