celldex
Index of Reference Cell Type Datasets
Bioconductor version: Release (3.19)
Provides a collection of reference expression datasets with curated cell type labels, for use in procedures like automated annotation of single-cell data or deconvolution of bulk RNA-seq.
Author: Dvir Aran [aut], Aaron Lun [aut, cre, cph], Daniel Bunis [aut], Jared Andrews [aut], Friederike Dündar [aut]
Maintainer: Aaron Lun <infinite.monkeys.with.keyboards at gmail.com>
citation("celldex")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("celldex")
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("celldex")
Cell type references | HTML | R Script |
Reference Manual |
Details
biocViews | ExperimentData, ExperimentHub, ExpressionData, RNASeqData, SequencingData |
Version | 1.14.0 |
License | GPL-3 |
Depends | SummarizedExperiment |
Imports | utils, methods, Matrix, ExperimentHub, AnnotationHub, AnnotationDbi, S4Vectors, DelayedArray, DelayedMatrixStats, gypsum, alabaster.base, alabaster.matrix, alabaster.se, DBI, RSQLite, jsonlite |
System Requirements | |
URL | https://github.com/LTLA/celldex |
Bug Reports | https://support.bioconductor.org/ |
See More
Suggests | testthat, knitr, rmarkdown, BiocStyle, DT, jsonvalidate, BiocManager, ensembldb |
Linking To | |
Enhances | |
Depends On Me | OSCA.basic, OSCA.workflows, SingleRBook |
Imports Me | singleCellTK |
Suggests Me | ontoProc, SingleR, sketchR, tidySingleCellExperiment, tidySpatialExperiment |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | celldex_1.14.0.tar.gz |
Windows Binary | |
macOS Binary (x86_64) | |
macOS Binary (arm64) | |
Source Repository | git clone https://git.bioconductor.org/packages/celldex |
Source Repository (Developer Access) | git clone [email protected]:packages/celldex |
Package Short Url | https://bioconductor.org/packages/celldex/ |
Package Downloads Report | Download Stats |