HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data
☆268Jan 5, 2026Updated 4 months ago
Alternatives and similar repositories for HapHiC
Users that are interested in HapHiC are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Yet another Hi-C scaffolding tool☆181Nov 4, 2024Updated last year
- A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification☆172Oct 29, 2025Updated 6 months ago
- C-Phasing/CPhasing: Phasing and scaffolding polyploid genomes based on 3C-based data (Pore-C, CiFi, Hi-C, Omni-C).☆94May 7, 2026Updated 2 weeks ago
- A novel genome assembly pipeline based on deep learning☆70Dec 2, 2024Updated last year
- Chromosome-scale and haplotype-resolved assmebly of tetraploid cultiavetd potato with polyploidy graph binning☆28Aug 14, 2024Updated last year
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- To phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.☆70Mar 23, 2025Updated last year
- use long sequenced reads to close gaps in assemblies☆40Sep 4, 2018Updated 7 years ago
- 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☆179Oct 20, 2024Updated last year
- A gap-closing software tool that uses long reads to enhance genome assembly.☆239Sep 6, 2024Updated last year
- This is the standalone version of the EviAnn pipeline☆147May 14, 2026Updated last week
- Repeat-aware polishing genomes assembled using HiFi long reads☆102Apr 7, 2026Updated last month
- A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats☆69May 22, 2021Updated 5 years ago
- Dynamic Elongation of a Genome Assembly Path☆25Apr 29, 2026Updated 3 weeks ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- WGDI: A user-friendly toolkit for evolutionary analyses of whole-genome duplications and ancestral karyotypes☆164Nov 4, 2025Updated 6 months ago
- A genome completeness evaluation tool based on miniprot☆242Sep 18, 2025Updated 8 months ago
- Hifiasm: a haplotype-resolved assembler for accurate Hifi reads☆775May 15, 2026Updated last week
- Identify and find telomeres, or telomeric repeats in a genome.☆164Nov 24, 2025Updated 6 months ago
- ☆32Apr 7, 2025Updated last year
- A program for assessing the T2T genome continuity and completeness☆95Feb 28, 2026Updated 2 months ago
- Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…☆391Apr 22, 2026Updated last month
- Synteny and Rearrangement Identifier☆468Updated this week
- ☆27May 12, 2026Updated last week
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Inference of ploidy and heterozygosity structure using whole genome sequencing data☆294Feb 25, 2026Updated 3 months ago
- ☆34Mar 19, 2025Updated last year
- A organelle de novo genome assembly toolkit☆76Feb 22, 2025Updated last year
- haplotypic duplication identification tool☆285Oct 30, 2025Updated 6 months ago
- High-precision TE Annotator☆158Dec 4, 2025Updated 5 months ago
- This pipeline is used to distinguish allotetraploid subgenomes.☆11Apr 8, 2024Updated 2 years ago
- Neural network classification of TE☆99Apr 3, 2026Updated last month
- Centromics: visualing centromeres with multiple omics data☆27Mar 4, 2025Updated last year
- Extensive de-novo TE Annotator☆446May 12, 2026Updated last week
- 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.
- ☆41Jun 8, 2023Updated 2 years ago
- Any Way to Show Multi genomic Synteny☆227Jul 4, 2025Updated 10 months ago
- BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eu…☆460Apr 12, 2026Updated last month
- ☆32Mar 3, 2026Updated 2 months ago
- Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation☆196Apr 27, 2026Updated 3 weeks ago
- source code for EVM☆124Nov 29, 2024Updated last year
- k-mer based assembly evaluation☆343Updated this week