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Bioconductor version: Release (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 (from within R,
enter citation("HiBED")
):
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.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("HiBED")
HTML | R Script | HiBED |
Reference Manual | ||
Text | NEWS |
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 |
LinkingTo | |
Suggests | knitr, rmarkdown, testthat, IlluminaHumanMethylation450kmanifest |
SystemRequirements | |
Enhances | |
URL | https://github.com/SalasLab/HiBED |
BugReports | https://github.com/SalasLab/HiBED/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 | 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 |
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