Pan-genome inference and genotyping with long noisy or short accurate reads
☆120Dec 13, 2024Updated last year
Alternatives and similar repositories for pandora
Users that are interested in pandora are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Code to create a PRG from a Multiple Sequence Alignment file☆25Sep 10, 2025Updated last year
- Bifrost graph gene caller.☆102Aug 31, 2026Updated last month
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs☆227Aug 11, 2026Updated 2 months ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- base-accurate DNA sequence alignments using WFA and mashmap3☆225Sep 28, 2026Updated 2 weeks ago
- SEER, reimplemented in python 🐍🔮☆140Updated this week
- Strain-level haplotyping for metagenomes with short or long-reads.☆71Apr 10, 2025Updated last year
- An updated pipeline for pangenome investigation☆377Jul 2, 2026Updated 3 months ago
- Genome inference from a population reference graph☆96Apr 1, 2025Updated last year
- The Modular Aligner and The Modular SV Caller☆47Jul 18, 2023Updated 3 years ago
- Recombination-free trees☆75Jul 24, 2026Updated 2 months ago
- Classify sequencing reads using MinHash.☆47Apr 6, 2020Updated 6 years ago
- Pan-genome Seed Index☆20Jul 3, 2026Updated 3 months ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Graph-based assembly phasing☆102Nov 25, 2025Updated 10 months ago
- Split k-mer analysis – version 2☆106Updated this week
- Indexing & querying large assembly graphs -- in space, no one can hear you miao!☆120Jan 29, 2026Updated 8 months ago
- Pipeline for analysing intergenic regions in bacteria☆39Oct 25, 2019Updated 6 years ago
- Automated strain separation of low-complexity metagenomes☆52Nov 10, 2021Updated 4 years ago
- alignment to variation graph inducer☆165Jul 29, 2026Updated 2 months ago
- Long-read metagenomic analysis☆112Oct 10, 2023Updated 3 years ago
- Histosketching Using Little Kmers☆56May 25, 2023Updated 3 years ago
- reference free variant assembly☆34Jul 14, 2023Updated 3 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Constructing a pangenome gene graph☆212Aug 11, 2025Updated last year
- Build a partitioned pangenome graph from microbial genomes☆312Oct 6, 2026Updated last week
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆41Aug 7, 2026Updated 2 months ago
- strain-level analysis tools☆40Oct 21, 2024Updated last year
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆36Aug 4, 2021Updated 5 years ago
- ☆29Sep 28, 2024Updated 2 years ago
- Follow up to Grace Blackwell's 661k dataset, for 2023☆156Jun 10, 2026Updated 4 months ago
- Fast average nucleotide identity (ANI) calculator for bacterial genomes, MAGs, and contigs. Supports genome comparisons and large-scale d…☆267Updated this week
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆112Jun 2, 2026Updated 4 months ago
- 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.
- An efficient index for the colored, compacted, de Bruijn graph☆113Jun 19, 2026Updated 3 months ago
- Create a tree using Mash distances☆194Oct 24, 2023Updated 2 years ago
- A toolbox for pangenome analysis and threshold evaluation.☆103Jul 8, 2022Updated 4 years ago
- A fast approximate aligner for long DNA sequences☆292Oct 11, 2024Updated 2 years ago
- Drug Resistance Prediction with Reference Graphs☆21Oct 23, 2025Updated 11 months ago
- genome_updater is a bash script that downloads and updates (non-redundant) snapshots of the NCBI Genomes repository (RefSeq/GenBank) with…☆176Oct 9, 2026Updated last week
- Pan-Genomic Matching Statistics☆59Apr 3, 2024Updated 2 years ago