scClassify
This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see scClassify.
scClassify: single-cell Hierarchical Classification
Bioconductor version: 3.11
scClassify is a multiscale classification framework for single-cell RNA-seq data based on ensemble learning and cell type hierarchies, enabling sample size estimation required for accurate cell type classification and joint classification of cells using multiple references.
Author: Yingxin Lin
Maintainer: Yingxin Lin <yingxin.lin at sydney.edu.au>
citation("scClassify")):
Installation
To install this package, start R (version "4.0") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("scClassify")
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("scClassify")| pretrainedModel | HTML | R Script |
| scClassify | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Classification, GeneExpression, SingleCell, Software |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.11 (R-4.0) (4 years) |
| License | GPL-3 |
| Depends | R (>= 4.0) |
| Imports | S4Vectors, limma, ggraph, igraph, methods, cluster, minpack.lm, mixtools, BiocParallel, proxy, proxyC, Matrix, ggplot2, hopach, diptest, mgcv, stats, graphics, statmod |
| System Requirements | |
| URL | |
| Bug Reports | https://github.com/SydneyBioX/scClassify/issues |
See More
| Suggests | knitr, rmarkdown, BiocStyle, pkgdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | scClassify_1.0.0.tar.gz |
| Windows Binary | scClassify_1.0.0.zip |
| macOS 10.13 (High Sierra) | scClassify_1.0.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/scClassify |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/scClassify |
| Bioc Package Browser | https://code.bioconductor.org/browse/scClassify/ |
| Package Short Url | https://bioconductor.org/packages/scClassify/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.11 | Source Archive |