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:
- a Semi-automated pipeline for assembling T2T genome☆25Oct 16, 2025Updated 5 months ago
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆179Oct 20, 2024Updated last year
- ☆16Dec 25, 2024Updated last year
- A filter algorithm with program to filter an alignment or mapping file☆12May 15, 2025Updated 10 months ago
- Tool for globally phasing diploid assembly graphs with orthogonal data☆43Nov 25, 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.
- A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats☆69May 22, 2021Updated 4 years ago
- ☆86Jul 12, 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
- ☆22Feb 26, 2026Updated last month
- Methylatino phasing using PacBio CCS reads☆14Dec 13, 2024Updated last year
- LTR_Finder is an efficient program for finding full-length LTR retrotranspsons in genome sequences.☆51Jan 16, 2024Updated 2 years ago
- A software for gap filling in genome assemblies☆10Aug 12, 2022Updated 3 years ago
- T2Tools is a toolset contains several tools for T2T assembly, and it is under development.☆15Sep 17, 2025Updated 6 months ago
- MITE Tracker: An accurate approach to identify miniature inverted-repeat transposable elements in large genomes☆20Mar 21, 2024Updated 2 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Robust Eukaryotic Annotation Toolkit☆17Feb 28, 2025Updated last year
- A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification☆166Oct 29, 2025Updated 4 months ago
- A novel genome assembly pipeline based on deep learning☆69Dec 2, 2024Updated last year
- C-Phasing/CPhasing: Phasing and scaffolding polyploid genomes based on 3C-based data (Pore-C, CiFi, Hi-C，Omni-C).☆90Jan 25, 2026Updated 2 months ago
- Gap2Seq is a gap filling and insertion genotyping tool.☆22Aug 12, 2024Updated last year
- HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data☆255Jan 5, 2026Updated 2 months ago
- Simple tools for working with Hi-C data☆18Dec 19, 2018Updated 7 years ago
- ☆16Apr 14, 2021Updated 4 years ago
- CATG (Collinearity-based Assembly correcTor GUI) is a tool that can correct genome assembly with collinearity and generate tour files for…☆17Jan 24, 2026Updated 2 months ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- “When everything is connected to everything else, for better or worse, everything matters.” Bruce Mau☆19Jul 13, 2020Updated 5 years ago
- A tool for plotting CAFE5 gene family expansion/contraction result☆36Sep 22, 2023Updated 2 years ago
- A genome completeness evaluation tool based on miniprot☆237Sep 18, 2025Updated 6 months ago
- Importing and manipulating Hi-C data in R☆12Jul 17, 2025Updated 8 months ago
- To phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.☆70Mar 23, 2025Updated last year
- Repeat-aware polishing genomes assembled using HiFi long reads☆98Nov 12, 2025Updated 4 months ago
- Centromics: visualing centromeres with multiple omics data☆25Mar 4, 2025Updated last year
- Hybrid error correction approach for long reads using overlap graph☆11Sep 26, 2023Updated 2 years ago
- ☆17Feb 11, 2026Updated last month
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Generation of OrthoDB protein sets for gene prediction experiments☆11Aug 8, 2024Updated last year
- TOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annot…☆205Nov 23, 2025Updated 4 months ago
- Make colorful identity heatmaps of genomic sequence☆128May 24, 2024Updated last year
- A program for detection of tRNA genes☆87Nov 16, 2022Updated 3 years ago
- QuickProt: A Fast and Accurate Homology-Based Protein Annotation Tool for Non-Model Organisms to Advance Comparative Genomics☆18Jan 12, 2026Updated 2 months ago
- A organelle de novo genome assembly toolkit☆75Feb 22, 2025Updated last year
- Dynamic Elongation of a Genome Assembly Path☆25Feb 25, 2026Updated last month