GSAlign: an ultra-fast sequence alignment algorithm for intra-species genome comparison
☆60Apr 24, 2024Updated 2 years ago
Alternatives and similar repositories for GSAlign
Users that are interested in GSAlign are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- linearize and simplify variation graphs using blocked partial order alignment☆67Aug 21, 2026Updated 2 months ago
- Scripts to do haplotype analysis on pan genomes.☆20Sep 24, 2020Updated 6 years ago
- Long read aligner for cyclic and acyclic pangenome graphs☆41Dec 20, 2023Updated 2 years ago
- Reference-agnostic Representation and Visualization of Pan-genomes☆19Sep 16, 2021Updated 5 years ago
- base-accurate DNA sequence alignments using WFA and mashmap3☆225Sep 28, 2026Updated last month
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Long-reads Gap-free Chromosome-scale Assembler☆79Mar 21, 2023Updated 3 years ago
- Merging assemblies by using adjacency algebraic model and classification☆22Jun 17, 2023Updated 3 years ago
- We developed GenomeSyn as a new tool for constructing and visualizing genome synteny, its novel design and implementation can serve as a …☆36Jan 3, 2022Updated 4 years ago
- ☆36Jun 24, 2026Updated 4 months ago
- recompute GFA link overlaps☆26Sep 14, 2022Updated 4 years ago
- A program to generate a graph which presents a simplified representation of several full length genomes☆13Aug 23, 2018Updated 8 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 9 months ago
- A KMER-based genome-wIde Assocation testing approach on polyploids☆72Jul 29, 2026Updated 3 months ago
- Fast-SG: An alignment-free algorithm for ultrafast scaffolding graph construction from short or long reads.☆23May 29, 2018Updated 8 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Prefix-renaming FASTA records really fast.☆18Jun 26, 2024Updated 2 years ago
- reference-free estimation of ploidy level from whole genome sequencing data based on de Bruijn graph☆23Jul 26, 2023Updated 3 years ago
- A program to call variants from genome alignment☆84Apr 29, 2025Updated last year
- A genome assembly assessment pipeline.☆39Jun 5, 2026Updated 4 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
- Yet another Hi-C scaffolding tool☆186Nov 4, 2024Updated last year
- Tools for manipulating sequence graphs in the GFA and rGFA formats☆255Dec 16, 2025Updated 10 months ago
- HiC-Hiker: A probabilistic model to determine contig orientation in chromosome-length scaffolds with Hi-C☆26Jan 14, 2021Updated 5 years ago
- Banded Striped DNA Sequence Alignment☆54May 9, 2023Updated 3 years 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.
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Apr 8, 2021Updated 5 years ago
- ☆42May 19, 2025Updated last year
- AC-DIAMOND is a DNA-protein alignment tool☆17Oct 11, 2023Updated 3 years ago
- plane sweep filtering genome alignments☆24Sep 28, 2026Updated last month
- Fast and frugal disk based k-mer counter☆15Apr 1, 2021Updated 5 years ago
- Sensitive alignment of genomes with high sequence diversity, extensive structural polymorphism and whole-genome duplication variation☆203Aug 17, 2026Updated 2 months ago
- ☆30Jul 16, 2022Updated 4 years ago
- alignment to variation graph inducer☆165Jul 29, 2026Updated 3 months ago
- Tool to plot synteny and structural rearrangements between genomes☆359Jul 27, 2026Updated 3 months ago
- 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.
- An ultra-fast and efficient tool for high frequency kmer sequencing reads extraction☆19Mar 6, 2024Updated 2 years ago
- A Plant Presence/absence Variants Scanner and Pan-genome Construction Pipeline☆27May 24, 2021Updated 5 years ago
- extract MSAs from genome variation graphs☆34Mar 24, 2026Updated 7 months ago
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆129Feb 13, 2026Updated 8 months ago
- Pangenome graphs (review article on graph-based pangenomic methods)☆73Apr 15, 2020Updated 6 years ago
- A fast whole-genome aligner based on de Bruijn graphs☆162Jul 6, 2025Updated last year
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago