zhang-jiankun Goto Github PK

atac-seq-pipeline

ENCODE ATAC-seq pipeline

bioinfokit

Bioinformatics data analysis and visualization toolkit

code

cooler

A cool place to store your Hi-C

coolpuppy

A versatile tool to perform pile-up analysis on Hi-C data in .cool format.

cworld-dekker

perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)

dip-c

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

fithic

Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture assays such as Hi-C.

foam

A personal knowledge management and sharing system for VSCode

hic-data-analysis-bootcamp

Workshop on measuring, analyzing, and visualizing the 3D genome with Hi-C data.

hickit

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

hickit-modified

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

id2id

bioinformatics python script

juicer

A One-Click System for Analyzing Loop-Resolution Hi-C Experiments

limca

marsala

For better further of people.

orca

sequence-based prediction of multiscale genome structure from kilobase to whole-chromosome scale

pairtools

CLI tools to process mapped Hi-C data

pgltools

Paired Genomic Loci Tool Suite

rtfbs_db

Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.

schicluster

scrna-seq

sklearn_scipy2013

Scikit-learn tutorials for the Scipy 2013 conference

sklearn_tutorial

Tutorial for astronomy data processing with scikit-learn

slurmpy

submit jobs to slurm in Odyssey HPC

spatiallianti

tels

scripts for TEL project

zhangjk.github.io

Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes