🍪 SEnsible Step-wise Analysis of DNA MEthylation BeadChips

smartapp

Interactive visualization of Illumina methylation array data

A conda-forge distribution.

Metascape Code Repository

Gene set variation analysis

SEACR: Sparse Enrichment Analysis for CUT&RUN

Chromatin contact paired-read single-cell Hi-C processing module for Nuc3D and NucTools

TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C

Tools to process and analyze deep sequencing data.

Software package to design bridge RNAs as described by Durrant & Perry et al.

Analysis pipeline for CUT&TAG data

Implementation of paper - YOLOv9: Learning What You Want to Learn Using Programmable Gradient Information

Tools to analyze Dip-C (or other 3C/Hi-C) data

bedtools - the swiss army knife for genome arithmetic

Devel repository for bsseq

RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.

RepEnrich is a method to estimate repetitive element enrichment using high-throughput sequencing data.

A Bioconductor package and shiny app for DNA methylation data length bias adjustment in gene set testing

DMR Identification Tool

R package for DNA methylation analysis

Apply Mapping Functions in Parallel using Futures