scMET - Bayesian modelling of cell-to-cell DNA methylation heterogeneity
High-throughput single-cell measurements of DNA methylomes can quantify methylation heterogeneity and uncover its role in gene regulation. However, technical limitations and sparse coverage can preclude this task. scMET is a hierarchical Bayesian model which overcomes sparsity, sharing information across cells and genomic features to robustly quantify genuine biological heterogeneity. scMET can identify highly variable features that drive epigenetic heterogeneity, and perform differential methylation and variability analyses. We illustrate how scMET facilitates the characterization of epigenetically distinct cell populations and how it enables the formulation of novel hypotheses on the epigenetic regulation of gene expression.
Last updated 24 days ago
immunooncologydnamethylationdifferentialmethylationdifferentialexpressiongeneexpressiongeneregulationepigeneticsgeneticsclusteringfeatureextractionregressionbayesiansequencingcoveragesinglecellbayesian-inferencegeneralised-linear-modelsheterogeneityhierarchical-modelsmethylation-analysissingle-cell
6.23 score 20 stars 42 scripts 124 downloadsBPRMeth - Model higher-order methylation profiles
The BPRMeth package is a probabilistic method to quantify explicit 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 levels or clustering genomic regions or cells according to their methylation profiles.
Last updated 24 days ago
immunooncologydnamethylationgeneexpressiongeneregulationepigeneticsgeneticsclusteringfeatureextractionregressionrnaseqbayesiankeggsequencingcoveragesinglecell
5.45 score 1 packages 94 scripts 230 downloadsMelissa - Bayesian clustering and imputationa of single cell methylomes
Melissa is a Baysian probabilistic model for jointly clustering and imputing single cell methylomes. This is done by taking into account local correlations via a Generalised Linear Model approach and global similarities using a mixture modelling approach.
Last updated 24 days ago
immunooncologydnamethylationgeneexpressiongeneregulationepigeneticsgeneticsclusteringfeatureextractionregressionrnaseqbayesiankeggsequencingcoveragesinglecell
4.90 score 7 scripts 154 downloads