minfi

Python toolkit for parsing, processing, and analysis of Illumina methylation array IDAT files

R-based DNA methylation array data analysis workflow.

Methylation array preprocessing.

This package provides Illumina Mouse Methylation Array Annotation (12.v1, Genome Build mm10) compatible with minfi.

This repository contains the final project of Group 4 for the DNA/RNA Dynamics course (MSc Bioinformatics, University of Bologna). It provides a full Illumina 450K methylation analysis pipeline in R, including preprocessing, quality control, normalization (Funnorm), PCA, and identification of DMPs between control (CTRL) and disease (DIS) samples.

Pipeline for the analysis of Illumina 450k DNA methylation data in R using the Bioconductor package minfi

DNA methylation (DNAm) Bioconductor package for Illumina Methylation arrays (EPICv2, EPIC and 450K). DOI: 10.18129/B9.bioc.dnaEPICO

This repository contains the project of the DNA/RNA Dynamics course of the MSc Bioinformatics at the University of Bologna. The project is about the analysis of methylation data generated from Illumina HumanMethylation450K Beadchip.

Provides easy to use, objective oriented functions for preprocessing methylation data produced by an Illumina Infinium BeadChip and detecting differentially methylated positions and regions within the DNA.

Pipeline for methylation analysis of fibromyalgia patients using ChAMP Includes QC, normalization, DMP/DMR analysis, enrichment, and PPI network interpretation.

Exploratory DNA methylation analysis using R and minfi, including quality control, normalization, PCA, and differential methylation analysis.

Differential methylation analysis pipeline using Illumina 450k array data from GEO (GSE42861). Includes preprocessing, QC, normalization, limma-based DMP detection, annotation, and visualization (volcano plot, MA plot, PCA). Built in R for reproducibility and educational use.