Plotting average TAD heatmap for Hi-C data (give TAD segmentation and cool/hiclib interactions map).
☆10Jun 5, 2021Updated 4 years ago
Alternatives and similar repositories for avTAD
Users that are interested in avTAD are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- SELFISH is a tool for finding differential chromatin interactions between two Hi-C contact maps.☆17Jun 1, 2023Updated 2 years ago
- A versatile tool to perform pile-up analysis on Hi-C data in .cool format.☆81Oct 31, 2024Updated last year
- Red-C data processing☆15Apr 18, 2023Updated 2 years ago
- Python reimplementation of hicrep with compatibility for sparse matrices☆19Dec 18, 2022Updated 3 years ago
- A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains☆45Aug 4, 2022Updated 3 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Clodius is a tool for breaking up large data sets into smaller tiles that can subsequently be displayed using an appropriate viewer.☆39Updated this week
- Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support☆42Jan 31, 2024Updated 2 years ago
- Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation☆81Jan 24, 2025Updated last year
- Lightweight converter between hic and cool contact matrices.☆74Jul 15, 2024Updated last year
- A modular Hi-C mapping pipeline☆102Dec 5, 2024Updated last year
- Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps☆70Dec 16, 2022Updated 3 years ago
- FAN-C: Framework for the ANalysis of C-like data☆120Mar 13, 2024Updated 2 years ago
- Slides and demos from our SciPyConf 2019 talk☆13Sep 28, 2021Updated 4 years ago
- Annotate Olfactory receptor CDS from genome☆11Apr 29, 2023Updated 2 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- The complete sequence of a Chinese individual☆12Oct 8, 2024Updated last year
- Software to assemble contigs/scaffolds into chromosomes using Hi-C data☆28Sep 26, 2024Updated last year
- QC report generator for Hi-C pairs file☆13Sep 14, 2020Updated 5 years ago
- A library to analyse the structure of 1d loops and simulate loop extrusion by loop extruding factors.☆11Feb 10, 2025Updated last year
- ☆22May 26, 2020Updated 5 years ago
- Figures for the CHM13 T2T SD paper.☆11Sep 12, 2021Updated 4 years ago
- Chromatin domains bursting with flavor☆12Dec 29, 2019Updated 6 years ago
- Python bindings for hictk: read and write .cool and .hic files directly from Python☆16Mar 30, 2026Updated 2 weeks ago
- convert alignment bam to pairwise alignment or multiple sequence alignment (msa) at genome specific region☆13May 21, 2024Updated last year
- Serverless GPU API endpoints on Runpod - Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Flexible HDF5 saving/loading library forked from deepdish (University of Chicago) and maintained by the Portugues lab☆16Dec 6, 2024Updated last year
- ☆13Sep 11, 2025Updated 7 months ago
- Genomics 3D Visualizer☆14Jun 14, 2024Updated last year
- plot Multiple Sequence Alignment(MSA) of Clustal by python package☆14Mar 14, 2023Updated 3 years ago
- A visual exploration and hypothesis testing tool for 3D genomics☆13Apr 12, 2024Updated 2 years ago
- “When everything is connected to everything else, for better or worse, everything matters.” Bruce Mau☆190Jul 13, 2020Updated 5 years ago
- A viewer for multiple alignment format (MAF) files in JBrowse 2☆14Mar 14, 2026Updated last month
- Jupyter notebook based genomic data visualization toolkit.☆255Dec 4, 2025Updated 4 months ago
- Transfer HiFi read mappings from their own assembly contigs to a standard reference☆38Dec 30, 2025Updated 3 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- TransposonPSI involves a PSI-blast search of a protein or nucleotide sequence against a set of profiles of proteins corresponding to majo…☆14Apr 28, 2020Updated 5 years ago
- A toolkit for analyzing architectural stripes☆20Dec 1, 2024Updated last year
- Chromosome polymer simulations and in silico capture experiments☆57Feb 18, 2026Updated last month
- ☆16Apr 3, 2023Updated 3 years ago
- Server component for HiGlass that manages and serves tiled data☆21May 23, 2023Updated 2 years ago
- Pooled Sequencing Analysis for Sex Signal☆15Sep 14, 2021Updated 4 years ago
- High-performance stochastic modeling of DNA loop extrusion interactions☆18Dec 22, 2025Updated 3 months ago