Bioconductor version: Release (3.11)
Package designed to aid in classifying cells from single-cell RNA sequencing data using external reference data (e.g., bulk RNA-seq, scRNA-seq, microarray, gene lists). A variety of correlation based methods and gene list enrichment methods are provided to assist cell type assignment.
Author: Rui Fu [aut, cre], Kent Riemondy [aut], RNA Bioscience Initiative [fnd], Austin Gillen [ctb], Chengzhe Tian [ctb], Jay Hesselberth [ctb], Yue Hao [ctb], Michelle Daya [ctb]
Maintainer: Rui Fu <raysinensis at gmail.com>
Citation (from within R,
enter citation("clustifyr")
):
To install this package, start R (version "4.0") and enter:
if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("clustifyr")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("clustifyr")
HTML | R Script | Introduction to clustifyr |
Reference Manual | ||
Text | NEWS | |
Text | LICENSE |
biocViews | Annotation, Microarray, Sequencing, SingleCell, Software |
Version | 1.0.0 |
In Bioconductor since | BioC 3.11 (R-4.0) (0.5 years) |
License | MIT + file LICENSE |
Depends | R (>= 3.6) |
Imports | cowplot, dplyr, entropy, fgsea, ggplot2, Matrix, readr, rlang, scales, stringr, tibble, tidyr, stats, methods, SingleCellExperiment, SummarizedExperiment, matrixStats, S4Vectors |
LinkingTo | |
Suggests | ComplexHeatmap, covr, knitr, rmarkdown, testthat, ggrepel, BiocStyle |
SystemRequirements | |
Enhances | |
URL | http://github.com/rnabioco/clustifyr#readme https://rnabioco.github.io/clustifyr/ |
BugReports | https://github.com/rnabioco/clustifyr/issues |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | clustifyr_1.0.0.tar.gz |
Windows Binary | clustifyr_1.0.0.zip |
macOS 10.13 (High Sierra) | clustifyr_1.0.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/clustifyr |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/clustifyr |
Package Short Url | https://bioconductor.org/packages/clustifyr/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.11 | Source Archive |
Documentation »
Bioconductor
R / CRAN packages and documentation
Support »
Please read the posting guide. Post questions about Bioconductor to one of the following locations: