HiBED
This package is for version 3.18 of Bioconductor; for the stable, up-to-date release version, see HiBED.
HiBED
Bioconductor version: 3.18
Hierarchical deconvolution for extensive cell type resolution in the human brain using DNA methylation. The HiBED deconvolution estimates proportions up to 7 cell types (GABAergic neurons, glutamatergic neurons, astrocytes, microglial cells, oligodendrocytes, endothelial cells, and stromal cells) in bulk brain tissues.
Author: Ze Zhang [cre, aut] , Lucas A. Salas [aut]
Maintainer: Ze Zhang <ze.zhang.gr at dartmouth.edu>
citation("HiBED")
):
Installation
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("HiBED")
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("HiBED")
HiBED | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | ExperimentData, Genome, Homo_sapiens_Data, MethylationArrayData, MicroarrayData, PackageTypeData, Tissue |
Version | 1.0.0 |
License | GPL-3 |
Depends | R (>= 3.5.0) |
Imports | dplyr, FlowSorted.Blood.EPIC, tibble, FlowSorted.DLPFC.450k, minfi, utils, AnnotationHub, SummarizedExperiment |
System Requirements | |
URL | https://github.com/SalasLab/HiBED |
Bug Reports | https://github.com/SalasLab/HiBED/issues. |
See More
Suggests | knitr, rmarkdown, testthat, IlluminaHumanMethylation450kmanifest |
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 | HiBED_1.0.0.tar.gz |
Windows Binary | |
macOS Binary (x86_64) | |
macOS Binary (arm64) | |
Source Repository | git clone https://git.bioconductor.org/packages/HiBED |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/HiBED |
Package Short Url | https://bioconductor.org/packages/HiBED/ |
Package Downloads Report | Download Stats |