XiaoTaoWang
My research focuses on developing computational tools to study 3D genome organization and its relationship with gene regulation.
Fudan UniversityShanghai
Pinned Repositories
peakachu
Genome-wide contact analysis using sklearn
Best-Labs-of-3D-Genome
Data and the co-authored network I extracted for lab selection in 3D genome research field
domaincaller
A Python implementation of the original DI domain caller
EagleC
A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps
HiC_pipeline
An easy-to-use Hi-C data processing software supporting distributed computation.
HiCLift
A fast and efficient tool for converting chromatin interaction data between genome assemblies
HiCPeaks
A Python implementation for BH-FDR and HiCCUPS
NeoLoopFinder
A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes
StripeCaller
A toolkit for analyzing architectural stripes
TADLib
A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
XiaoTaoWang's Repositories
XiaoTaoWang/HiCLift
A fast and efficient tool for converting chromatin interaction data between genome assemblies
XiaoTaoWang/NeoLoopFinder
A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes
XiaoTaoWang/EagleC
A deep-learning framework for predicting a full range of structural variations from bulk and single-cell contact maps
XiaoTaoWang/HiC_pipeline
An easy-to-use Hi-C data processing software supporting distributed computation.
XiaoTaoWang/HiCPeaks
A Python implementation for BH-FDR and HiCCUPS
XiaoTaoWang/TADLib
A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
XiaoTaoWang/StripeCaller
A toolkit for analyzing architectural stripes
XiaoTaoWang/Best-Labs-of-3D-Genome
Data and the co-authored network I extracted for lab selection in 3D genome research field
XiaoTaoWang/domaincaller
A Python implementation of the original DI domain caller
XiaoTaoWang/Project-Euler
Python solutions for Project Euler
XiaoTaoWang/calTADs
A hierarchical domain caller for Hi-C data based on a modified version of Directionality Index
XiaoTaoWang/Think-Complexity-Notes
Jupyter notebooks I created during reading Allen Downey's book Think Complexity
XiaoTaoWang/peakachu
Genome-wide contact analysis using sklearn
XiaoTaoWang/GradeSudoku
Python library for generating Sudoku puzzles of different grades
XiaoTaoWang/Python
All Algorithms implemented in Python
XiaoTaoWang/awesome-public-datasets
A topic-centric list of high-quality open datasets in public domains. Propose NEW data ☛☛☛PR☛☛☛
XiaoTaoWang/bioconda-recipes
Conda recipes for the bioconda channel.
XiaoTaoWang/cooler
A cool place to store your Hi-C
XiaoTaoWang/cs-video-courses
List of Computer Science courses with video lectures.
XiaoTaoWang/free-programming-books
:books: Freely available programming books
XiaoTaoWang/gimmemotifs
Suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments. See full GimmeMotifs documentation for detailed installation instructions and usage examples.
XiaoTaoWang/GSEApy
Gene Set Enrichment Analysis in Python
XiaoTaoWang/imbalanced-learn
Python module to perform under sampling and over sampling with various techniques.
XiaoTaoWang/minimap2
A versatile pairwise aligner for genomic and spliced nucleotide sequences
XiaoTaoWang/negspy
Python NGS Repository
XiaoTaoWang/pomegranate
Fast, flexible and easy to use probabilistic modelling in Python.
XiaoTaoWang/pyensembl
Python interface to ensembl reference genome metadata (exons, transcripts, etc...)
XiaoTaoWang/smoove
structural variant calling and genotyping with existing tools, but, smoothly.
XiaoTaoWang/speedseq
A flexible framework for rapid genome analysis and interpretation
XiaoTaoWang/Valentine-gift
For my girlfriend