AlfaPang builds pangenome graphs without alignments or references.
☆17Nov 7, 2025Updated 10 months ago
Alternatives and similar repositories for AlfaPang
Users that are interested in AlfaPang are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- pangenome from maximal blocks in an MSA☆11Sep 17, 2024Updated 2 years ago
- Differential quantification of alternative splicing events on spliced pangenome graphs☆16Jan 30, 2026Updated 7 months ago
- Method for inferring path posterior probabilities and abundances from pangenome graph read alignments☆62Sep 6, 2025Updated last year
- Scripts used to perform analyses in Rice et al. (2023)☆16Dec 28, 2023Updated 2 years ago
- An accurate aligner of long reads to a variation graph, based on co-linear chaining☆35May 23, 2025Updated last year
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Pangenome graphs visualisation, distance computing, reconstruction of sequences and other utility functions☆38Apr 28, 2026Updated 4 months ago
- Enumerating bubbles in pangenome graphs☆16Aug 26, 2026Updated 3 weeks ago
- Panacus is a tool for computing statistics for GFA-formatted pangenome graphs☆139Sep 8, 2026Updated 2 weeks ago
- GFA visualization tool - Rust reimplementation of odgi viz☆15May 2, 2026Updated 4 months ago
- A plant organellar Graphical Fragment Assembly toolkit☆17Updated this week
- implicit pangenome graph☆114Updated this week
- ☆23Sep 7, 2026Updated 2 weeks ago
- Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)☆63Jul 5, 2026Updated 2 months ago
- strange cross-platform, performance-oriented and interactive pangenome and large graph visualization☆53Jul 29, 2026Updated last month
- 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.
- Clustering tool optimized for sparse distance matrices: ~16M elements with ~190M connections clustered in minutes.☆16Sep 12, 2026Updated last week
- Bash scripts and data used in pantranscriptomic paper☆25Oct 21, 2022Updated 3 years ago
- ☆30Aug 7, 2025Updated last year
- Prefix-renaming FASTA records really fast.☆18Jun 26, 2024Updated 2 years ago
- Rapid alignment-free method for introgression screening and GWAS using k-mer profiles☆32Apr 22, 2026Updated 5 months ago
- Detailed bioinformatics scripts and methods used in the Maize-Pan-genome paper.☆17Oct 8, 2025Updated 11 months ago
- ☆19May 10, 2023Updated 3 years ago
- Rust implementation of Flavia95's GFAtoVCF☆16Jan 17, 2022Updated 4 years ago
- ☆14Dec 26, 2025Updated 8 months ago
- 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.
- ☆17Aug 25, 2025Updated last year
- PSAURON is a machine learning model for rapid assessment of protein coding gene annotation☆66May 17, 2026Updated 4 months ago
- Reference bias measuring toolkit☆22Mar 12, 2026Updated 6 months ago
- PG-SCUnK mesure quality of Pan-Genome Graphs using Single Copy and Universal k-mers☆25Feb 16, 2026Updated 7 months ago
- ☆15May 3, 2023Updated 3 years ago
- Mumemto: multi-MUM and MEM finding across pangenomes☆137Updated this week
- Long-read aligner to pangenome graphs☆29May 20, 2024Updated 2 years ago
- ☆52Jun 27, 2026Updated 2 months ago
- Optimal sequence-to-graph alignment with recombinations☆41Apr 28, 2026Updated 4 months ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- MEMO: MEM-based pangenome indexing for k-mer queries☆20Jun 11, 2024Updated 2 years ago
- HyLight is a strain aware de novo assembly method based on the overlap-layout-consensus (OLC) paradigm that leverages the strengths of NG…☆12Sep 18, 2024Updated 2 years ago
- Efficient indexing and querying of annotations in a pangenome graph☆10Oct 29, 2025Updated 10 months ago
- Identification of transposable element families from pangenome polymorphisms☆57Aug 11, 2026Updated last month
- Improved long-read assembly by preserving contained reads☆29Aug 22, 2024Updated 2 years ago
- Long read aligner for cyclic and acyclic pangenome graphs☆41Dec 20, 2023Updated 2 years ago
- A KMER-based genome-wIde Assocation testing approach on polyploids☆70Jul 29, 2026Updated last month