Sketch-based surveillance platform
☆14Jul 23, 2026Updated this week
Alternatives and similar repositories for mashpit
Users that are interested in mashpit are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆28May 22, 2025Updated last year
- app to collapse Pango lineages for reporting☆13Dec 9, 2025Updated 7 months ago
- Just another minhash implementation.☆12May 28, 2026Updated 2 months ago
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Aug 12, 2024Updated last year
- Next Index to Query Kmer Intersection☆17Feb 1, 2023Updated 3 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- SeqSero2☆41Oct 1, 2025Updated 9 months ago
- ☆10Jun 16, 2022Updated 4 years ago
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆13Jul 2, 2026Updated 3 weeks ago
- interactive barplot for amplicon sequencing☆13Dec 5, 2024Updated last year
- Ultra-rapid detection of viral variants directly from sequencing data☆46Updated this week
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated last month
- fast, multithreaded sourmash operations: search, compare, and gather.☆26Jul 20, 2026Updated last week
- Profiling NTM WGS data☆18Jun 20, 2026Updated last month
- Benchmark datasets for WGS analysis☆40Aug 4, 2019Updated 6 years ago
- 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.
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 3 years ago
- A curated database of completed assemblies with taxonomy IDs☆53Jun 7, 2026Updated last month
- Static website for the PH4AGE alliance☆13Oct 27, 2023Updated 2 years ago
- Archived - please see updated sccmec tool at link below☆13Aug 30, 2024Updated last year
- NCBI Pathogen Detection Portal toolkit☆11Sep 6, 2023Updated 2 years ago
- Rapid determination of appropriate reference genomes.☆102Jan 22, 2025Updated last year
- SeqWho - A reliable and rapid FASTQ(A) file classifier☆11Jan 21, 2022Updated 4 years ago
- ☆10Apr 16, 2025Updated last year
- Order and orientation of complete bacterial genomes☆29Jun 30, 2026Updated 3 weeks 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.
- Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies☆14Jun 30, 2023Updated 3 years ago
- Scripts and reference files to type Group A Streptococcus☆11Apr 1, 2026Updated 3 months ago
- QA/QC pipeline for a MiSeq/HiSeq/Ion Torrent/assembly-only run☆12Dec 2, 2024Updated last year
- Validation of sycnmers compared to minimizers☆11May 10, 2025Updated last year
- Day 2 of ACAD's 2018 Advanced Bioinformatics Workshop☆12Nov 27, 2018Updated 7 years ago
- the we-flyin WFA-guided ultralong tiling sequence aligner☆10May 13, 2021Updated 5 years ago
- ☆10Jun 13, 2026Updated last month
- Fast, scalable, accurate and accessible Bayesian phylogenetics☆46Updated this week
- Ampseer examines reads in fastq format and identifies which multiplex PCR primer set was used to generate the SARS-CoV-2 sequencing libra…☆15Feb 27, 2024Updated 2 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Private, browser-based placement of genome sequences on phylogenetic trees using UShER.☆11Jul 18, 2026Updated last week
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆29Jul 12, 2026Updated 2 weeks ago
- A message queue for genomic surveillance☆20Oct 14, 2021Updated 4 years ago
- Fasten toolkit, for streaming operations on fastq files☆82Oct 24, 2025Updated 9 months ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆37Jul 21, 2025Updated last year
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆109Jun 2, 2026Updated last month
- A Nextflow pipeline for genome and pan-genome annotation☆16Feb 22, 2026Updated 5 months ago