extract MSAs from genome variation graphs
☆34Mar 24, 2026Updated 3 months ago
Alternatives and similar repositories for maffer
Users that are interested in maffer are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Population genetics analysis on VG☆17Apr 22, 2021Updated 5 years ago
- GFA insert into GenomicSQLite☆49Jun 7, 2021Updated 5 years ago
- alignment to variation graph inducer☆163Jun 17, 2026Updated last month
- Rust implementation of Flavia95's GFAtoVCF☆16Jan 17, 2022Updated 4 years ago
- Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]☆11Mar 6, 2024Updated 2 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Pangenome graphs (review article on graph-based pangenomic methods)☆73Apr 15, 2020Updated 6 years ago
- recompute GFA link overlaps☆26Sep 14, 2022Updated 3 years ago
- Pangenome Graph Variation Format (PGVF)☆19Sep 24, 2020Updated 5 years ago
- linearize and simplify variation graphs using blocked partial order alignment☆63Mar 31, 2026Updated 3 months ago
- Identifying large scale inversions between two genomes by mapping genome 1's unique kmers onto genome 2.☆10Jun 6, 2025Updated last year
- your friendly pangenome graph genotyper☆10Feb 6, 2023Updated 3 years ago
- convert variation graph alignments to coverage maps over nodes☆27Jan 21, 2026Updated 6 months ago
- guix packages for bioinformatics software☆23Jan 22, 2024Updated 2 years ago
- A program to generate a graph which presents a simplified representation of several full length genomes☆13Aug 23, 2018Updated 7 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.
- Panache is a web-based interface designed for the visualization of linearized pangenomes. It can be used to show presence/absence informa…☆49Jun 7, 2023Updated 3 years ago
- An experimental tool to estimate the similarity between all pairs of contigs☆40Apr 12, 2021Updated 5 years ago
- RDF and SPARQL ideas to build on top of [odgi](https://github.com/pangenome/odgi)☆13Mar 20, 2024Updated 2 years ago
- A read alignment visualization library for long reads☆10Aug 6, 2022Updated 3 years ago
- base-accurate DNA sequence alignments using edlib and mashmap2☆32Feb 15, 2021Updated 5 years ago
- Library for the Handle Graph abstraction☆25Jan 15, 2026Updated 6 months ago
- ☆11Dec 9, 2022Updated 3 years ago
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆40May 4, 2026Updated 2 months ago
- R package and wrapper functions for identifying serial structural variations from genome assemblies☆29Sep 21, 2024Updated last year
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- Sequence Distance Graph framework: graph + reads + mapping + analysis☆25Jun 4, 2022Updated 4 years ago
- ☆26Aug 10, 2021Updated 4 years ago
- Graphical interactive tool for the visualization of sequence graphs in GFA format.☆75Feb 19, 2019Updated 7 years ago
- ☆18Jan 29, 2025Updated last year
- Refinements of the WFA alignment algorithm with better complexity☆26Mar 31, 2022Updated 4 years ago
- ☆102Apr 22, 2024Updated 2 years ago
- Statistics and analysis for variation graphs☆52Dec 17, 2024Updated last year
- ☆64Jun 14, 2021Updated 5 years ago
- ☆46Apr 18, 2026Updated 3 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- run-length BWT tools for genomic sequences☆19May 19, 2022Updated 4 years ago
- ☆31Mar 27, 2024Updated 2 years ago
- Versatile tool for detecting selective sweeps with a variety of ages, strengths, starting allele frequencies, and completeness.☆15Feb 16, 2026Updated 5 months ago
- Course material for UBC Biol525D☆12Aug 15, 2019Updated 6 years ago
- Optimized sequence graph implementations for graph genomics☆37Jun 30, 2026Updated 3 weeks ago
- A tool set to assess the quality of the per read phasing and reduce the errors.☆13Jun 25, 2020Updated 6 years ago
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago