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 assemble large contigs into chromosomal-level scaffolds.
☆26Mar 11, 2023Updated 3 years ago
Alternatives and similar repositories for EndHiC
Users that are interested in EndHiC are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆180Oct 20, 2024Updated last year
- ☆15Apr 16, 2026Updated 3 months ago
- A filter algorithm with program to filter an alignment or mapping file☆12May 15, 2025Updated last year
- Tool for globally phasing diploid assembly graphs with orthogonal data☆43Nov 25, 2024Updated last year
- Pipeline for genome scaffolding by modelling distributions of HiC pairs☆12Dec 7, 2022Updated 3 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats☆69May 22, 2021Updated 5 years ago
- a Semi-automated pipeline for assembling T2T genome☆28Oct 16, 2025Updated 9 months ago
- ☆88Jul 12, 2024Updated 2 years ago
- HiC-Hiker: A probabilistic model to determine contig orientation in chromosome-length scaffolds with Hi-C☆26Jan 14, 2021Updated 5 years ago
- Methylatino phasing using PacBio CCS reads☆14Dec 13, 2024Updated last year
- A software for gap filling in genome assemblies☆10Aug 12, 2022Updated 4 years ago
- LTR_Finder is an efficient program for finding full-length LTR retrotranspsons in genome sequences.☆50Jan 16, 2024Updated 2 years ago
- ☆24Feb 26, 2026Updated 5 months ago
- T2Tools is a toolset contains several tools for T2T assembly, and it is under development.☆17Sep 17, 2025Updated 10 months ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- MITE Tracker: An accurate approach to identify miniature inverted-repeat transposable elements in large genomes☆20Mar 21, 2024Updated 2 years ago
- Identify and find telomeres, or telomeric repeats in a genome.☆173Nov 24, 2025Updated 8 months ago
- Robust Eukaryotic Annotation Toolkit☆17Feb 28, 2025Updated last year
- ☆16Apr 14, 2021Updated 5 years ago
- A chromosome-level polyploid phasing scaffolding tool☆18Aug 6, 2026Updated last week
- A novel genome assembly pipeline based on deep learning☆71Dec 2, 2024Updated last year
- HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data☆278Updated this week
- A comprehensive telomere annotation tool for genome assemblies and graphs.☆18Aug 5, 2026Updated last week
- A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification☆180Jun 23, 2026Updated last month
- 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.
- Simple tools for working with Hi-C data☆20Dec 19, 2018Updated 7 years ago
- Gap2Seq is a gap filling and insertion genotyping tool.☆22Aug 12, 2024Updated 2 years 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 6 months ago
- A tool for plotting CAFE5 gene family expansion/contraction result☆37Sep 22, 2023Updated 2 years ago
- A genome completeness evaluation tool based on miniprot☆260Jul 29, 2026Updated 2 weeks ago
- “When everything is connected to everything else, for better or worse, everything matters.” Bruce Mau☆20Jul 13, 2020Updated 6 years ago
- Repeat-aware polishing genomes assembled using HiFi long reads☆105Apr 7, 2026Updated 4 months ago
- Centromics: visualing centromeres with multiple omics data☆27Mar 4, 2025Updated last year
- To phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.☆77Jun 4, 2026Updated 2 months ago
- 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.
- Importing and manipulating Hi-C data in R☆12Apr 29, 2026Updated 3 months ago
- Hybrid error correction approach for long reads using overlap graph☆11Sep 26, 2023Updated 2 years ago
- TOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annot…☆211Nov 23, 2025Updated 8 months ago
- Generation of OrthoDB protein sets for gene prediction experiments☆11Aug 8, 2024Updated 2 years ago
- Finding patch of conserved amino acid sites in 3D structure☆14Apr 13, 2025Updated last year
- Make colorful identity heatmaps of genomic sequence☆139May 24, 2024Updated 2 years ago
- Dynamic Elongation of a Genome Assembly Path☆28Jul 27, 2026Updated 2 weeks ago