ryought / hic_hikerView external linksLinks
HiC-Hiker: A probabilistic model to determine contig orientation in chromosome-length scaffolds with Hi-C
☆26Jan 14, 2021Updated 5 years ago
Alternatives and similar repositories for hic_hiker
Users that are interested in hic_hiker are comparing it to the libraries listed below
Sorting:
- T2Tools is a toolset contains several tools for T2T assembly, and it is under development.☆15Sep 17, 2025Updated 4 months ago
- ☆33Mar 19, 2025Updated 10 months ago
- HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data☆254Jan 5, 2026Updated last month
- HELIANO is a software for detection and classification of Helitron-like elements.☆32Jun 10, 2025Updated 8 months ago
- Scripts to do haplotype analysis on pan genomes.☆20Sep 24, 2020Updated 5 years ago
- Repeat-aware polishing genomes assembled using HiFi long reads☆98Nov 12, 2025Updated 3 months ago
- Improved Phased Assembler☆28Mar 11, 2022Updated 3 years ago
- ☆31Apr 7, 2025Updated 10 months ago
- C-Phasing/CPhasing: Phasing and scaffolding polyploid genomes based on Pore-C, HiFi-C/CiFi or Hi-C.☆87Jan 25, 2026Updated 3 weeks ago
- Nextflow pipeline for scaffolding genome assemblies with Hi-C reads☆16Nov 5, 2025Updated 3 months ago
- To phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.☆70Mar 23, 2025Updated 10 months ago
- ☆78Jun 12, 2020Updated 5 years ago
- A filter algorithm with program to filter an alignment or mapping file☆12May 15, 2025Updated 9 months ago
- Draw a dot plot from a paf alignment☆38Sep 18, 2025Updated 4 months ago
- ☆16Dec 25, 2024Updated last year
- ☆16Apr 9, 2021Updated 4 years ago
- Large genome reassembly based on Hi-C data, continuation of GRAAL☆43Mar 20, 2024Updated last year
- Long-reads Gap-free Chromosome-scale Assembler☆79Mar 21, 2023Updated 2 years ago
- ☆78Dec 4, 2019Updated 6 years ago
- A GAN-based method for Enhancing Hi-C data☆33Dec 17, 2020Updated 5 years ago
- A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats☆69May 22, 2021Updated 4 years ago
- Reduction of Althaps and Duplicate Contigs for Improved Hi-C Scaffolding☆20Mar 3, 2025Updated 11 months ago
- ☆29Jul 16, 2022Updated 3 years ago
- A novel genome assembly pipeline based on deep learning☆68Dec 2, 2024Updated last year
- Yet another Hi-C scaffolding tool☆170Nov 4, 2024Updated last year
- A genome assembly assessment pipeline.☆37Nov 20, 2023Updated 2 years ago
- A software for gap filling in genome assemblies☆10Aug 12, 2022Updated 3 years ago
- an ensemble usage of MAFFT-linsi --add on large datasets☆13May 31, 2024Updated last year
- Some components that speed up and reduce resource cost for original ALLHiC☆14Jun 21, 2025Updated 7 months ago
- SINE annotation tool for plant genomes☆18Jan 21, 2024Updated 2 years ago
- Dynamic Elongation of a Genome Assembly Path☆25Dec 15, 2025Updated 2 months ago
- Unzip assembly graphs with Hi-C data and/or long reads.☆27Sep 20, 2024Updated last year
- Structural Variant Identification Method using Genome Assemblies☆134Sep 16, 2022Updated 3 years ago
- An ultra-fast gzip file tools☆27Apr 25, 2024Updated last year
- ☆26Mar 23, 2024Updated last year
- Fast alignment and preprocessing of chromatin profiles☆213Jan 17, 2026Updated 3 weeks ago
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Apr 8, 2021Updated 4 years ago
- ☆16Apr 3, 2023Updated 2 years ago
- ☆20Dec 8, 2025Updated 2 months ago