epigenomics topic

:dart: ChIP peak Annotation, Comparison and Visualization

YuLab-SMU

Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel

nf-core

Peax is a tool for interactive visual pattern search and exploration in epigenomic data based on unsupervised representation learning with autoencoders

Novartis

Bead-based single-cell atac processing

caleblareau

Python package to analyze DNA methylation data

liguowang

Predicting regulatory DNA elements based on epigenomic signatures

yupenghe

Haystack: Epigenetic Variability and Transcription Factor Motifs Analysis Pipeline

pinellolab

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

dohlee

Toolkit for single-cell DNA methylation analysis.

lhqing

The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)

dohlee