taxonomic classifier based on the kraken2 algorithms and more
☆46Dec 12, 2025Updated 8 months ago
Alternatives and similar repositories for sepia
Users that are interested in sepia are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Aug 12, 2024Updated 2 years ago
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆35Updated this week
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆40Aug 7, 2026Updated last week
- Predict plasmids from uncorrected long read data☆41Feb 27, 2026Updated 5 months ago
- Accurate metagenomic profiling && Fast large-scale sequence/genome searching☆219Apr 24, 2026Updated 3 months 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.
- TaxTriage is a Nextflow workflow designed to agnostically identify and give confidences of microbial organisms within short- or long-read…☆80Updated this week
- Histosketching Using Little Kmers☆56May 25, 2023Updated 3 years ago
- VIGOR4☆23Aug 15, 2025Updated last year
- Rapid determination of appropriate reference genomes.☆103Jan 22, 2025Updated last year
- Spriggan is a pipeline used for assembly of bacterial whole genome sequence data and identification of antibiotic resistance genes.☆16Updated this week
- frame-shift correction for long-read (meta)genomics☆33Dec 11, 2023Updated 2 years ago
- SARS-Cov-2 Recombinant Finder for fasta sequences☆50Jun 22, 2022Updated 4 years ago
- A post-processing tool to reclassify Kraken 2 output based on the confidence score and/or minimum minimizer hit groups.☆11Nov 10, 2025Updated 9 months ago
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- 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.
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆67Jul 27, 2026Updated 3 weeks ago
- Minimum Bait Cover Toolkit Syotti.☆15Jan 22, 2025Updated last year
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆15Aug 26, 2024Updated last year
- Kraken2 Server☆23Nov 24, 2025Updated 8 months ago
- Get microbial sequence data easier and faster☆29Nov 7, 2019Updated 6 years ago
- GTDB taxonomy taxdump files with trackable TaxIds☆62Apr 18, 2026Updated 4 months ago
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆29Mar 10, 2026Updated 5 months ago
- Symmetric DUST for finding low-complexity regions in DNA sequences☆46Jul 24, 2025Updated last year
- 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.
- Output FASTQ summary statistics in JSON format☆29Oct 30, 2022Updated 3 years ago
- A taxonomic classifier of plasmids☆29Jul 7, 2021Updated 5 years ago
- Make phylogenetic trees and lineages from the NCBI Taxonomy database☆14Mar 19, 2023Updated 3 years ago
- Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies☆14Jun 30, 2023Updated 3 years ago
- FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomi…☆68Jun 4, 2026Updated 2 months ago
- A Python package for obtaining, parsing and exploring biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)☆52May 5, 2026Updated 3 months ago
- Classify sequencing reads using MinHash.☆48Apr 6, 2020Updated 6 years ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆50Feb 20, 2026Updated 5 months ago
- UPHL's Reference Free Pipeline☆29Aug 10, 2026Updated last week
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- CAMITAX: Taxon labels for microbial genomes☆31Dec 14, 2023Updated 2 years ago
- Rust in bioinformatics and computational biology☆19Oct 22, 2022Updated 3 years ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆261May 13, 2026Updated 3 months ago
- ☆27Aug 2, 2023Updated 3 years ago
- deSAMBA: fast and accurate classification of metagenomics long reads with sparse approximate matches☆12May 5, 2024Updated 2 years ago
- Graph-based assembly phasing☆99Nov 25, 2025Updated 8 months ago
- ☆10Apr 16, 2025Updated last year