桌面版脑图 (百度脑图离线版，思维导图) 跨平台支持 Windows/Linux/Mac OS. (A cross-platform multilingual Mind Map Tool)

A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and auxilary tools

4C-seq processing pipeline

Custom codes for Flysta3D paper.

Code used for DRIPc analysis

Sanger Cellular Genetics single-cell ATAC-seq pipeline.

scTyper: a comprehensive pipeline for the cell typing analysis of single-cell RNA-seq data

Code related to scRNA analysis using the scAmpi workflow

A Systematic and Dynamic Pipeline for Single-Cell RNA Sequencing Analysis

An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.

Collection of Python modules, scripts and Jupyter notebooks to investigate Hi-C and Capture Hi-C interactions with respect to the four relative orientations of mapped paired-end reads.

Scripts for analysing hILCs CHi-C, including COGS runs and downstream analyses

Snakemake wrapper around the Arima Capture Hi-C (CHiC) workflow

R package for COGS

Updated rCOGS scripts implementing the multiCOGS approach

tools for oncovirus analysis from NGS data

De novo assembler for single molecule sequencing reads using repeat graphs

Graph-linked unified embedding for single-cell multi-omics data integration

code associated with crane-nature-2015, 10.1038/nature14450

Harmony framework for connecting scRNA-seq data from discrete time points

General analysis of HiC data, including compartment A/B, domains and loops.

🍹This repo includes the scripts and analysis notebook for the Droplet Hi-C manuscript

A python package to process demultiplexed single cell Hi-C data

modified from lh3/hickit, output cell barcode (split from read name) to the .pairs.gz file

Preprocess and analysis code for dscHiC code (Honggui Wu, Maoxu Wang et al. 2025)