Python bindings for Bifrost's compacted colored de Bruijn Graph with a NetworkX-compatible API
☆27Oct 20, 2023Updated 2 years ago
Alternatives and similar repositories for pyfrost
Users that are interested in pyfrost are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Optimal distance lower bound k-mer sampling.☆12Jun 19, 2024Updated last year
- Paint genomes with taxa-specific k-mer probabilities☆15Apr 4, 2022Updated 3 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- De Bruijn graph representation in low memory☆35Jul 6, 2024Updated last year
- Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs☆223Oct 23, 2025Updated 5 months ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆26Apr 29, 2024Updated last year
- SeqOthello supports fast coverage query and containment query.☆12May 8, 2019Updated 6 years ago
- An alignment-free, reference-free and incremental data structure for colored de Bruijn graph with application to pan-genome indexing.☆44Jan 28, 2022Updated 4 years ago
- kvector is a small utility for converting motifs to kmer vectors to compare motifs of different lengths☆10May 29, 2017Updated 8 years ago
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- Minimum Bait Cover Toolkit Syotti.☆13Jan 22, 2025Updated last year
- Long read aligner for cyclic and acyclic pangenome graphs☆40Dec 20, 2023Updated 2 years ago
- A graph-inspired data structure for determining likely chains of sequences from breadcrumbs of evidence☆17Jun 29, 2021Updated 4 years ago
- Iterate k-min-mers from a DNA sequence in Rust☆13Apr 8, 2024Updated last year
- DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- ☆44Nov 20, 2021Updated 4 years ago
- compacted de Bruijn graph construction in low memory☆100Nov 4, 2025Updated 4 months ago
- BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data☆124Aug 24, 2023Updated 2 years ago
- ☆15Mar 11, 2026Updated 2 weeks ago
- vector illustrations of BWT based searching on small strings☆16Apr 29, 2019Updated 6 years ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24May 30, 2024Updated last year
- fast, multithreaded sourmash operations: search, compare, and gather.☆25Mar 16, 2026Updated last week
- Overview of our data for microbial genomic benchmarking☆36Feb 5, 2026Updated last month
- ☆14Oct 14, 2020Updated 5 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- A genomic minhashing implementation in Rust☆103Jun 17, 2025Updated 9 months ago
- A database for signatures of public genomic sources☆18Jan 1, 2026Updated 2 months ago
- modular k-mer count matrix and Bloom filter construction for large read collections☆86Updated this week
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆29Apr 24, 2025Updated 11 months ago
- A multiscale pangenome browser☆29Updated this week
- Pan gGnome Viewer☆10Jul 10, 2025Updated 8 months ago
- Hidden Markov Model based Copy number caller☆20Dec 9, 2025Updated 3 months ago
- De Bruijn graph construction for large k.☆17Aug 31, 2021Updated 4 years ago
- Gfapy: a flexible and extensible software library for handling sequence graphs in Python☆71Nov 13, 2025Updated 4 months ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- a simple read-only sequence database, designed for short reads☆65Updated this week
- linearize and simplify variation graphs using blocked partial order alignment☆61Feb 25, 2026Updated last month
- Run shell commands in a scientifically reproducible and robust way☆24Feb 27, 2026Updated last month
- GFA visualizer, GPU-accelerated using Vulkan☆76Aug 2, 2022Updated 3 years ago
- A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.☆53Updated this week
- Rust bindings to minimap2 library☆109Mar 2, 2026Updated 3 weeks ago
- ☆16Jan 21, 2024Updated 2 years ago