https://github.com/crazyhottommy/dna-methylation-analysis

DNA methylation analysis notes from Ming Tang

dna-methylation

Last synced: 02 Mar 2025

https://github.com/dohlee/metheor

:comet: Ultrafast DNA methylation heterogeneity calculation from bisulfite alignments (Lee et al., PLOS Computational Biology. 2023)

bioinformatics computational-biology computational-epigenomics dna-methylation epigenomics rust

Last synced: 29 Apr 2025

https://github.com/lkremer/scbs

Python package with CLI for the analysis of single cell methylation data. Now known as MethSCAn: https://github.com/anders-biostat/MethSCAn

dna-methylation dna-methylation-data methylation single-cell single-cell-methylation single-cell-rna-seq

Last synced: 09 May 2025

https://github.com/databio/cocoa

Annotating epigenetic variation among samples with region sets in R

dna-methylation pca

Last synced: 12 Apr 2025

https://github.com/lieberinstitute/alzheimers_dnam

Epigenome-wide analysis of DNA methylation from Alzheimer's patients and unaffected controls

450k alzheimers-disease dna-methylation epigenomics

Last synced: 07 May 2025

https://github.com/supermaxiste/arpeggio

A SnakeMake workflow to analyse whole genome bisulfite sequencing data from allopolyploids.

allopolyploid automation bisulfite-sequencing dna-methylation epigenetics plants reproducibility snakemake whole-genome-sequencing workflow

Last synced: 17 Mar 2025

https://github.com/lieberinstitute/brain-epigenomics

dna-methylation rna-seq rstats

Last synced: 07 May 2025

https://github.com/andrewdavidsmith/transferase

The transferase system for retrieving methylome data from methbase

bisulfite bisulfite-sequencing dna-methylation epigenetics epigenomics methyl-seq methylation methylation-analysis methylome wgbs

Last synced: 06 Apr 2025

https://github.com/navpreetdevpuri/dnac

DNAc is a programming language for DNAs.

dna dna-assembly dna-methylation dna-processing dna-sequence genetic-algorithm genetic-analysis genetic-programming genetic-programming-algorithm genetic-variants genetics

Last synced: 28 Mar 2025

https://github.com/cxli233/gamete-small-rna

R Markdown files for analyses of rice small RNA, gene expression and DNA methylation

dna-methylation gene-expression plant-development r small-rna

Last synced: 05 Mar 2025

https://github.com/stephaniehicks/flowsorted.blood.wgbs.blueprint

A Bioconductor ExperimentHub data package for flow sorted purified whole blood cell types measured using DNA methylation on WGBS platform from BLUEPRINT

bioconductor bioconductor-package bisulfite-sequencing blood data dna-methylation flowsort wgbs

Last synced: 26 Feb 2025

https://github.com/akmagan387/bioconductor-learning-container

🧬 Containerized development environment for Harvard's Professional Certificate in Data Analysis for Genomics (PH525.x series). Streamlined setup for Bioconductor, R, and genomic data analysis with RStudio and DevContainer support.

bioconductor bioinformatics chip-seq data-science devcontainer dna-methylation docker functional-genomics harvard harvardx r reproducible-research rna-seq rstudio

Last synced: 02 Mar 2025

https://github.com/andrewdavidsmith/mxe

Methylome transfer engine (mxe)

bisulfite bisulfite-sequencing dna-methylation epigenetics epigenomics methyl-seq methylation methylation-analysis methylome wgbs

Last synced: 29 Nov 2024

https://github.com/juliuspinsker/bioconductor-learning-container

🧬 Containerized development environment for Harvard's Professional Certificate in Data Analysis for Genomics (PH525.x series). Streamlined setup for Bioconductor, R, and genomic data analysis with RStudio and DevContainer support.

bioconductor bioinformatics chip-seq data-analysis data-science devcontainer dna-methylation docker edx functional-genomics genomics harvard harvardx ph525 ph525x r reproducible-research rna-seq rstudio single-cell-rna-seq

Last synced: 23 Mar 2025

https://github.com/dohlee/idat2beta

Small minfi wrapper to convert IDAT files to beta values.

bioinformatics dna-methylation methylation-analysis

Last synced: 27 Feb 2025