A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats
☆70May 22, 2021Updated 5 years ago
Alternatives and similar repositories for juicebox_scripts
Users that are interested in juicebox_scripts are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆30Jul 16, 2022Updated 4 years ago
- De novo chromosome-level scaffolding and phasing tool using Hi-C☆30Oct 17, 2026Updated last week
- Simple tools for working with Hi-C data☆20Dec 19, 2018Updated 7 years ago
- ☆34Apr 7, 2025Updated last year
- A filter algorithm with program to filter an alignment or mapping file☆13May 15, 2025Updated last year
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Yet another Hi-C scaffolding tool☆185Nov 4, 2024Updated last year
- HiC-Hiker: A probabilistic model to determine contig orientation in chromosome-length scaffolds with Hi-C☆26Jan 14, 2021Updated 5 years ago
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆180Oct 20, 2024Updated 2 years ago
- Hybrid error correction approach for long reads using overlap graph☆11Sep 26, 2023Updated 3 years ago
- A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files☆38Jun 6, 2022Updated 4 years ago
- Generate an interactive dot plot from mummer or minimap alignments☆219Jan 17, 2024Updated 2 years ago
- HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data☆288Aug 10, 2026Updated 2 months ago
- The tool is employed for the visualisation of genome-wide contact heatmaps.☆14Apr 14, 2025Updated last year
- Pipeline for genome scaffolding by modelling distributions of HiC pairs☆12Dec 7, 2022Updated 3 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- C-Phasing/CPhasing: Phasing and scaffolding polyploid genomes based on 3C-based data (Pore-C, CiFi, Hi-C, Omni-C).☆115Jul 23, 2026Updated 3 months ago
- A gap-closing software tool that uses long reads to enhance genome assembly.☆251Sep 6, 2024Updated 2 years ago
- ☆16Oct 8, 2026Updated 3 weeks ago
- Centromics: visualing centromeres with multiple omics data☆28Mar 4, 2025Updated last year
- Tool for globally phasing diploid assembly graphs with orthogonal data☆43Nov 25, 2024Updated last year
- A tool for the recovery of unassembled telomeres from soft-clipped read alignments.☆59Oct 9, 2026Updated 2 weeks ago
- Dynamic Elongation of a Genome Assembly Path☆32Updated this week
- A Hi-C scaffolding method☆22Dec 22, 2021Updated 4 years ago
- Identify and find telomeres, or telomeric repeats in a genome.☆180Updated this week
- 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.
- WGDI: A user-friendly toolkit for evolutionary analyses of whole-genome duplications and ancestral karyotypes☆176Nov 4, 2025Updated 11 months ago
- T2Tools is a toolset contains several tools for T2T assembly, and it is under development.☆17Sep 17, 2025Updated last year
- Tools for fast and flexible genome assembly scaffolding and improvement☆578Oct 1, 2026Updated 3 weeks ago
- Genome mapping and spliced alignment of cDNA or amino acid sequences☆116Jul 11, 2026Updated 3 months ago
- TEsorter: an accurate and fast method to classify LTR-retrotransposons in plant genomes☆114Nov 17, 2025Updated 11 months ago
- To phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.☆77Jun 4, 2026Updated 4 months ago
- CATG (Collinearity-based Assembly correcTor GUI) is a tool that can correct genome assembly with collinearity and generate tour files for…☆18Jan 24, 2026Updated 9 months ago
- A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification☆191Jun 23, 2026Updated 4 months ago
- A novel genome assembly pipeline based on deep learning☆71Dec 2, 2024Updated last year
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- ☆45Dec 11, 2025Updated 10 months ago
- k-mer based assembly evaluation☆357Jul 6, 2026Updated 3 months ago
- The tools are used for displaying hic signal of genome☆25Jan 4, 2021Updated 5 years ago
- A pipeline used to identify different modes of duplicated gene pairs☆127Jul 22, 2025Updated last year
- EndHic is a fast and easy-to-use Hi-C scaffolding tool, using the Hi-C links from contig end regions instead of whole contig regions to a…☆26Mar 11, 2023Updated 3 years ago
- OpenGL Powered Pretext Contact Map Viewer☆63Oct 22, 2026Updated last week
- ☆37Feb 22, 2023Updated 3 years ago