martirenom

ICREA-CNAG-CRGBarcelona

Pinned Repositories

IMP_BioSystem_Domain_Fly_Genome
Example of using IMP to model a region of the Fly genome https://integrativemodeling.org/systems/
Language:Python0 9 13
METALoci
METALoci: spatially auto-correlated signals in 3D genomes
Language:Python2 14 00
Sox9_METALoci
Code example of METALoci applied to H3K27ac for the Sox9 mouse locus during development (E13.5)
Language:Jupyter Notebook4 13 20
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
Language:Python101 15 25561
TADkit
3D Genome Browser
Language:JavaScript31 17 4410
3DAROC21
3DAROC21 - 3C-based data analysis and 3D reconstruction of chromatin folding (2020)
Language:Jupyter Notebook3 6 00
esda
statistics and classes for exploratory spatial data analysis
Language:Jupyter Notebook00
esda
statistics and classes for exploratory spatial data analysis
Language:Jupyter Notebook220 25 14558

martirenom/esda
statistics and classes for exploratory spatial data analysis
Language:Jupyter Notebook00