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3d Genome Python Packages

Python packages with the GitHub topic 3d-genome. Sorted by relevance, with stars and monthly downloads.
open2c
cooler

A cool place to store your Hi-C

15K 237 60
open2c
pairtools

Extract 3D contacts (.pairs) from sequencing alignments

13K 132 37
XiaoTaoWang
hiclift

A fast and efficient tool for converting chromatin interaction data between genome assemblies

1K 78 5
Tian-Dechao
diffdomain-py3

DiffDomain can test the significant difference of TADs on chromatin.

380 18 5
OluwadareLab
particlechromo3d

A Web-Server implementation of ParticleChromo3D for 3D chromosome structure reconstruction

350 3 2
YaqiangCao
cloops2

Loop-calling and peak-calling for sequencing-based interaction data, including related analysis utilities.

195 53 11
XiaoTaoWang
pairliftover

Convert genomic coordinates of contact pairs from one assembly to another.

181 78 5
cellular-genomics
firecaller

FIREcaller: Python library for detecting Frequently Interacting REgions (FIREs) from Hi-C data

160 5 1
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