3DGenomes's repositories
TADbit
TADbit is a complete Python library to deal with all steps to analyze, model and explore 3C-based data. With TADbit the user can map FASTQ files to obtain raw interaction binned matrices (Hi-C like matrices), normalize and correct interaction matrices, identify and compare the so-called Topologically Associating Domains (TADs), build 3D models from the interaction matrices, and finally, extract structural properties from the models. TADbit is complemented by TADkit for visualizing 3D models
angular-threejs
Angular module implementing THREEjs
Sox9_METALoci
Code example of METALoci applied to H3K27ac for the Sox9 mouse locus during development (E13.5)
OligoFISSEQ
Example of the analysis workflow of one image produced by OligoFISSEQ. All the files needed are contained in this repository
angular-d3js
Angular module implementing D3
IMP_BioSystem_Domain_Fly_Genome
Example of using IMP to model a region of the Fly genome https://integrativemodeling.org/systems/
3DViewerComponent
A ThreeJS 3D Viewer Web Component composed with (Google's) Polymer
TADkit-Viewer
A 3D viewer for TADbit models