SeqSero2
☆41Oct 1, 2025Updated last year
Alternatives and similar repositories for SeqSero2
Users that are interested in SeqSero2 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- CFSAN Shigella Typing Pipeline☆15Jun 11, 2026Updated 4 months ago
- Sketch-based surveillance platform☆13Oct 1, 2026Updated last week
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆31Jul 18, 2025Updated last year
- A taxonomic classifier of plasmids☆29Jul 7, 2021Updated 5 years ago
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Aug 12, 2024Updated 2 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 3 years ago
- LYVE-SET, a method of using hqSNPs to create a phylogeny, especially for outbreak investigations☆26Aug 26, 2024Updated 2 years ago
- Interpretative standards for AMR genotypes☆32Oct 7, 2026Updated last week
- Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies☆14Jun 30, 2023Updated 3 years ago
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆38Apr 24, 2025Updated last year
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Dec 11, 2020Updated 5 years ago
- ☆10Sep 2, 2026Updated last month
- Scan contig files against PubMLST typing schemes☆304Jun 17, 2026Updated 3 months ago
- BSR-Based Allele Calling Algorithm☆153Updated this week
- 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.
- SNP Pipeline is a pipeline for the production of SNP matrices from sequence data used in the phylogenetic analysis of pathogenic organism…☆67Jun 11, 2026Updated 4 months ago
- Population analysis PIPEline 🛠🧬☆28Mar 2, 2026Updated 7 months ago
- Archived - please see updated sccmec tool at link below☆13Aug 30, 2024Updated 2 years ago
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins☆225Oct 7, 2026Updated last week
- SKESA assembler☆128Oct 11, 2024Updated 2 years ago
- A placeholder for all my random scripts. Some scripts might eventually graduate and go to their own projects, so don't be surprised if a…☆17Nov 24, 2025Updated 10 months ago
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆187Apr 16, 2025Updated last year
- Assembly of Nanopore Sequencing☆17Oct 7, 2026Updated last week
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated 4 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.
- A curated database of completed assemblies with taxonomy IDs☆53Aug 31, 2026Updated last month
- Intra-species bacterial contamination detection☆26Jul 10, 2026Updated 3 months ago
- Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.☆25Jul 22, 2026Updated 2 months ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆35Jul 27, 2026Updated 2 months ago
- Calculate fastq reads and sequencing coverage☆15Oct 20, 2020Updated 5 years ago
- Create a tree using Mash distances☆194Oct 24, 2023Updated 2 years ago
- StxTyper uses a standardized algorithm to accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.☆19Aug 28, 2026Updated last month
- a short-read polishing tool for long-read assemblies☆226Jul 28, 2026Updated 2 months ago
- The tool for in silico serotyping☆65Oct 5, 2026Updated last week
- 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.
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆44Jul 23, 2021Updated 5 years ago
- Pneumococcal Capsular Typing tool for NGS data☆18Apr 6, 2021Updated 5 years ago
- Fast implementation of the Neighbour-Joining method for phylogenetic inference☆21Sep 10, 2024Updated 2 years ago
- Salmonella serotyping from genome sequencing data☆11Sep 3, 2018Updated 8 years ago
- Bacterial Genomics workflow for short(Illumina) and long-read (Oxford Nanopore) sequencing data☆12Feb 20, 2026Updated 7 months ago
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆48Sep 9, 2026Updated last month
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆99Dec 9, 2025Updated 10 months ago