k-mer based Pipeline to identify the Serotype from Illumina NGS reads
☆25Jul 13, 2023Updated 2 years ago
Alternatives and similar repositories for seroba
Users that are interested in seroba are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Pneumococcal Capsular Typing tool for NGS data☆18Apr 6, 2021Updated 4 years ago
- CFSAN Shigella Typing Pipeline☆15Jul 6, 2023Updated 2 years ago
- ☆59Mar 13, 2026Updated last week
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆14Aug 26, 2024Updated last year
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆50Apr 16, 2024Updated last year
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆13Dec 24, 2025Updated 3 months ago
- A pipeline for high-quality bacterial genome construction using ONT sequencing☆38Sep 22, 2022Updated 3 years ago
- SaffronTree: Reference free rapid phylogenetic tree construction from raw read data☆25Jun 11, 2020Updated 5 years ago
- A pipeline for running AMRfinderPlus and collating results into functional classes☆91Mar 19, 2026Updated last week
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆28Feb 12, 2026Updated last month
- de novo virus assembler of Illumina paired reads☆58May 17, 2021Updated 4 years ago
- LYVE-SET, a method of using hqSNPs to create a phylogeny, especially for outbreak investigations☆26Aug 26, 2024Updated last year
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Feb 27, 2026Updated 3 weeks ago
- Plasmid exploration of bacterial genomes☆23Mar 2, 2022Updated 4 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- A message queue for genomic surveillance☆20Oct 14, 2021Updated 4 years ago
- Genome size estimation from long read overlaps☆81Mar 9, 2026Updated 2 weeks ago
- A taxonomic classifier of plasmids☆29Jul 7, 2021Updated 4 years ago
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆44Aug 20, 2025Updated 7 months ago
- whole genome MLST analysis☆51Mar 13, 2026Updated last week
- Output FASTQ summary statistics in JSON format☆29Oct 30, 2022Updated 3 years ago
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆35Dec 2, 2024Updated last year
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- In silico prediction of E. coli serotype, pathotype and shiga toxin subtyping☆65Jun 5, 2025Updated 9 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Bifrost graph gene caller.☆98Jan 20, 2026Updated 2 months ago
- A microbial genomic analysis pipeline used by the Djordjevic Lab☆13Feb 9, 2025Updated last year
- ☆136Mar 17, 2026Updated last week
- UPHL's Reference Free Pipeline☆27Updated this week
- Cython bindings and Python interface to MUSCLE v5, a highly efficient and accurate multiple sequence alignment software.☆24Mar 7, 2026Updated 2 weeks ago
- Efficient and comprehensive metadata acquisition from the NCBI databases (includes SRA).☆50May 25, 2022Updated 3 years ago
- Intra-species bacterial contamination detection☆25Feb 5, 2026Updated last month
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆33Apr 24, 2025Updated 11 months ago
- In silico serotyping, finetyping and Bexsero antigen sequence typing of Neisseria meningitidis☆15Feb 19, 2026Updated last month
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- Rapid large-scale prokaryote pan genome analysis☆374Nov 3, 2025Updated 4 months ago
- Rapid identification of Staphylococcus aureus agr locus type and agr operon variants.☆10Jan 6, 2023Updated 3 years ago
- Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories☆39Feb 20, 2026Updated last month
- A tool for generating consensus long-read assemblies for bacterial genomes☆222Feb 23, 2026Updated last month
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Aug 12, 2024Updated last year
- Mycobacterium tuberculosis next generation sequence analysis☆24Oct 11, 2019Updated 6 years ago
- Minimal but speedy quality control for nanopore reads in Rust☆137Sep 16, 2024Updated last year