HiBED
This is the development version of HiBED; for the stable release version, see HiBED.
HiBED
Bioconductor version: Development (3.21)
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] (ORCID:
Maintainer: Ze Zhang <ze.zhang.gr at dartmouth.edu>
citation("HiBED")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
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 | 1.5.0 |
| 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_1.5.0.tar.gz |
| Windows Binary (x86_64) | |
| 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 |