WebBPRMeth. BPRMeth is a probabilistic method to extract higher order features of methylation profiles, in a way that would make it easier to formally use such profiles in downstream modelling efforts, such as predicting gene expression or clustering genomic regions or cells according to their methylation profiles.

andreaskapou/BPRMeth: Modelling DNA methylation …

WebMar 7, 2024 · The basic idea of BPRMeth is as follows: the methylation profile associated with a genomic region m is defined as a (latent) function f : m → (0, 1) which takes as … WebA tag already exists with the provided branch name. Many Git commands accept both tag and branch names, so creating this branch may cause unexpected behavior. sunova koers

BPRMeth: a flexible Bioconductor package for modelling …

Web#@title Binarise CpG sites # ' # ' @description Script for binarising CpG sites and formatting the coverage file # ' so it can be directly used from the BPRMeth package. The format of each # ' file is the following: , where met_level can be # ' either 0 or 1. To read compressed files, e.g ending in .gz or .bz2, the # ' R.utils package needs to … WebThis package uses the Binomial Probit Regression likelihood to model methylation profiles and extract higher order features. These features quantitate precisely notions of shape of a methylation profile. Using these higher order features across promoter-proximal regions, we construct a powerful predictor of gene expression. Also, these features are used to … WebHere, we present BPRMeth, a Bioconductor package that quantifies methylation profiles by generalized linear model regression. The original implementation has been enhanced in … sunova nz