- Home
- Bioconductor 3.21
- Software Packages
- knowYourCG
knowYourCG
This package is for version 3.21 of Bioconductor; for the stable, up-to-date release version, see knowYourCG.
Functional analysis of DNA methylome datasets
Bioconductor version: 3.21
KnowYourCG (KYCG) is a supervised learning framework designed for the functional analysis of DNA methylation data. Unlike existing tools that focus on genes or genomic intervals, KnowYourCG directly targets CpG dinucleotides, featuring automated supervised screenings of diverse biological and technical influences, including sequence motifs, transcription factor binding, histone modifications, replication timing, cell-type-specific methylation, and trait-epigenome associations. KnowYourCG addresses the challenges of data sparsity in various methylation datasets, including low-pass Nanopore sequencing, single-cell DNA methylomes, 5-hydroxymethylation profiles, spatial DNA methylation maps, and array-based datasets for epigenome-wide association studies and epigenetic clocks.
Author: Zhou Wanding [aut] ORCID iD ORCID: 0000-0001-9126-1932 , Goldberg David [aut, cre] ORCID iD ORCID: 0000-0002-9622-4708 , Fu Hongxiang [ctb]
Maintainer: Goldberg David <golddc72 at pennmedicine.upenn.edu>
citation("knowYourCG")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("knowYourCG")
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("knowYourCG")
Details
See More
Package Archives
Follow Installation instructions to use this package in your R session.