Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)
β31Jul 18, 2025Updated last year
Alternatives and similar repositories for genotyphi
Users that are interested in genotyphi are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- rapid serotyping of Vibrio parahaemolyticus from whole genome sequencing data using serogroup-specific genesβ10Sep 2, 2021Updated 5 years ago
- πβ In silico Legionella pneumophila Sequence Based Typingβ13Feb 8, 2026Updated 8 months ago
- CFSAN Shigella Typing Pipelineβ15Jun 11, 2026Updated 4 months ago
- Predict MLST directly from uncorrected long readsβ28Oct 31, 2025Updated last year
- In silico prediction of E. coli serotype, pathotype and shiga toxin subtypingβ66Jun 5, 2025Updated last year
- Deploy to Railway using AI coding agents - Free Credits Offer β’ AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- The Pathogenwatch Vibrio cholerae genotyping toolβ11Oct 9, 2026Updated 3 weeks ago
- SeqSero2β41Oct 1, 2025Updated last year
- In silico serotyping, finetyping and Bexsero antigen sequence typing of Neisseria meningitidisβ18Feb 19, 2026Updated 8 months ago
- SISTR (Salmonella In Silico Typing Resource) command-line toolβ39Apr 24, 2025Updated last year
- In silico multi-antigen sequence typing for Neisseria gonorrhoeae (NG-MAST)β10Jun 17, 2026Updated 4 months ago
- in silico typing of the H. influenzae cap locusβ13Jul 15, 2024Updated 2 years ago
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.β14Sep 29, 2026Updated last month
- Genomic neighbor typing of bacterial pathogens using MinHashβ42Jan 10, 2023Updated 3 years ago
- In silico Penicillin Binding Protein (PBP) typer for Streptococcus pneumoniae assembliesβ10Aug 6, 2024Updated 2 years ago
- Deploy on Railway without the complexity - Free Credits Offer β’ AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.β10Jun 9, 2026Updated 4 months ago
- Pneumococcal Capsular Typing tool for NGS dataβ18Apr 6, 2021Updated 5 years ago
- β38Apr 14, 2022Updated 4 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasetsβ35Jul 27, 2026Updated 3 months ago
- β68Jul 8, 2016Updated 10 years ago
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbinsβ226Oct 7, 2026Updated 3 weeks ago
- Pipeline to generate NGS reads from a phylogenyβ40Sep 13, 2022Updated 4 years ago
- Web interface for Kaptive, the tool for in silico serotypingβ11Aug 7, 2026Updated 2 months ago
- Rapid identification of Staphylococcus aureus agr locus type and agr operon variants.β14Jan 6, 2023Updated 3 years ago
- Deploy on Railway without the complexity - Free Credits Offer β’ AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- The tool for in silico serotypingβ66Updated this week
- Finding prophage regions in bacterial genomes using brute forceβ22Jan 20, 2023Updated 3 years ago
- β151Oct 11, 2026Updated 2 weeks ago
- Antibiotic resistance prediction in minutesβ122Mar 27, 2026Updated 7 months ago
- Kaptive database of O and K antigen clusters of Vibrio parahaemolyticusβ12May 21, 2025Updated last year
- whole genome MLST analysisβ57Jun 17, 2026Updated 4 months ago
- A Python package to update the MLST database for the mlst tool.β33Jul 22, 2026Updated 3 months ago
- The Genomic Epidemiology Application Ontology describes the genomics, laboratory, clinical and epidemiological contextual information reqβ¦β25Jul 11, 2026Updated 3 months ago
- Dryad is a Nextflow pipeline for examining prokaryote relatedness. Dryad can perform a reference free analysis and/or SNP analysis.β21Oct 19, 2026Updated last week
- Proton VPN Special Offer - Get 70% off β’ AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- de Bruijn graph cOrrectiOn from graph aLignmentβ11Jul 20, 2020Updated 6 years ago
- A simple pipeline for bacterial assembly and quality controlβ17Oct 22, 2026Updated last week
- Tool intended to pull out sequences and annotations between insertion sites specified by the user.β15Apr 10, 2026Updated 6 months ago
- β28Aug 2, 2023Updated 3 years ago
- β16Oct 2, 2019Updated 7 years ago
- A microbial genomic analysis pipeline used by the Djordjevic Labβ14Feb 9, 2025Updated last year
- β16Jun 30, 2021Updated 5 years ago