A R package and executable for the preprocessing, statistical analysis, and downstream testing and visualization of differentially methylated regions (DMRs) from CpG count matrices (Bismark cytosine reports)
A whole genome bisulfite sequencing (WGBS) pipeline for the alignment and QC of DNA methylation that goes from from raw reads (FastQ) to a CpG count matrix (Bismark cytosine reports)
An R package for weighted region comethylation network analysis
A pipeline to identify differentially-methylated regions from whole-genome bisulfite sequencing data
Takes output from DMRichR and performs statistical testing and visualization for CpG and genic annotation enrichments
Analysis scripts for identification and visualization of Wilson disease-associated DNA methylation changes in human liver and blood
Analyses for the manuscript "Prenatal PCB exposure alters a shared neurodevelopmental DNA methylation profile in mouse placenta and fetal brain".
This repository includes all the analyses related to the influence of environment in the early stages of evolution in the synthetic polyploid species Arabidopsis kamchatica
Analysis of DNA methylation and gene expression for thioredoxin system genes in Wilson disease
Analysis of DNA methylation data by whole-genome bisulfite sequencing in umbilical cord blood from ASD and TD subjects in the MARBLES and EARLI studies
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