Embedding-based indexing for compact storage and rapid querying of bacterial pan-genomes
☆24Sep 27, 2026Updated last month
Alternatives and similar repositories for panspace
Users that are interested in panspace are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…☆12May 22, 2024Updated 2 years ago
- complex Chaos Game Representation for DNA sequences☆22Apr 3, 2025Updated last year
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆42Apr 17, 2024Updated 2 years ago
- Plasmid analysis using rearrangement distances☆56Jul 19, 2026Updated 3 months ago
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆49Jun 19, 2026Updated 4 months ago
- AI Agents on 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.
- Strain-level haplotyping for metagenomes with short or long-reads.☆71Apr 10, 2025Updated last year
- Approximate nearest neighbour search for microbial genomes based on hash metric☆66Sep 19, 2026Updated last month
- NCBI Taxonomy History Browser☆10May 7, 2026Updated 5 months ago
- Design capture probes☆10Apr 28, 2025Updated last year
- Clustering tool optimized for sparse distance matrices: ~16M elements with ~190M connections clustered in minutes.☆16Sep 12, 2026Updated last month
- Phage-Host Interaction Search Tool☆33Sep 10, 2026Updated last month
- Strain-level abundances estimation in metagenomic samples using variation graphs☆24Jan 29, 2023Updated 3 years ago
- PANPROVA: PANgenomic PROkaryotic eVolution of full Assemblies☆10Jun 14, 2026Updated 4 months ago
- Overview of our data for microbial genomic benchmarking☆41Jun 19, 2026Updated 4 months 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.
- BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisons☆22Sep 9, 2026Updated last month
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches☆54Aug 21, 2026Updated 2 months ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆60Nov 3, 2023Updated 2 years ago
- Robust individual and aggregate checksums for nucleotide sequences☆18Mar 3, 2026Updated 7 months ago
- Space-efficient pseudoalignment with a colored de Bruijn graph☆59Mar 13, 2025Updated last year
- Compressed, associative, and exact hash table for k-mers☆11Oct 15, 2026Updated 2 weeks ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆38Apr 26, 2026Updated 6 months ago
- ☯️🧬 Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs☆37Oct 24, 2025Updated last year
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- A k-mer search engine for all Sequence Read Archive public accessions☆46May 13, 2026Updated 5 months ago
- Host depletion optimised for clinical metagenomic sequencing applications☆19Jul 9, 2026Updated 3 months ago
- Logan Unitigs and Contigs☆204Aug 29, 2026Updated 2 months ago
- MetaMDBG: a lightweight assembler for long and accurate metagenomics reads.☆236May 9, 2026Updated 5 months ago
- Unified Human Gut Virome Catalog☆48May 29, 2026Updated 5 months ago
- R integration for edlib, a C/C++ library for pairwise sequence alignment using edit distance (Levenshtein distance).☆11Jul 20, 2025Updated last year
- Code to create a PRG from a Multiple Sequence Alignment file☆26Sep 10, 2025Updated last year
- Pipeline which removes human DNA from microbial shotgun samples.☆16Aug 25, 2025Updated last year
- Downstream processing of VAMB binning for Viral Elucidation☆56Jul 3, 2024Updated 2 years 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.
- alignment-free coverage calculation for metagenomic binning >100 times faster☆58May 8, 2026Updated 5 months ago
- A scalable framework for automatically indexing microbial genomes and accurately characterizing metagenome-assembled genomes with Sequenc…☆24Aug 13, 2026Updated 2 months ago
- MUSET. Set of utilities for the construction of abundance unitig matrices from sequencing data☆11Jun 1, 2026Updated 4 months ago
- Metagenomic Binning Algorithm☆56Oct 22, 2026Updated last week
- ✨🧬 Refined binning of metagenomic contigs using assembly graphs☆97Mar 6, 2025Updated last year
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆66Sep 1, 2026Updated last month
- A toolkit for quality control & adjustment of nucleotide redundancy in bacterial pan-genome analyses☆21Feb 12, 2026Updated 8 months ago