Private, browser-based placement of genome sequences on phylogenetic trees using UShER.
☆11Aug 12, 2026Updated 2 months ago
Alternatives and similar repositories for shusher
Users that are interested in shusher are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- 🧬 🌲 Pangenome phylogenetic placement + read alignment + genotyping + metagenomics☆16Oct 13, 2026Updated 2 weeks ago
- Cython API for the Mutation Annotated Tree (MAT) Online Phylogenetics Toolkit☆14May 28, 2025Updated last year
- Estimating time trees from very large phylogenies☆27Sep 8, 2026Updated last month
- ☆13Oct 12, 2026Updated 3 weeks ago
- A tool for exploring large trees in the browser☆134Oct 7, 2026Updated 3 weeks ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Ultrafast Sample Placement on Existing Trees☆141Jun 1, 2026Updated 5 months ago
- Prepares a SARS-CoV-2 submission for GISAID, NCBI or ENA. Can read GISAID or NCBI files, or plain fasta+tsv/csv/xls. Finds files in input…☆36May 1, 2022Updated 4 years ago
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated 4 months ago
- ☆13Updated this week
- The repository contains the source code of the NanoForms server (Czmil et al. NanoForms: an integrated server for processing, analysis an…☆11Feb 22, 2023Updated 3 years ago
- Callable Loci... and more☆26Apr 8, 2026Updated 6 months ago
- ☆34Jan 5, 2023Updated 3 years ago
- TQSLE v1.0 released☆10Aug 29, 2023Updated 3 years ago
- ☆23Dec 11, 2024Updated last year
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Lightweight genome browser for microbial genomes☆11Sep 24, 2026Updated last month
- SeqWho - A reliable and rapid FASTQ(A) file classifier☆11Jan 21, 2022Updated 4 years ago
- SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity☆13Aug 14, 2023Updated 3 years ago
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, es…☆42Aug 5, 2024Updated 2 years ago
- A tool to aid virus sequencing and accelerate IRMA.☆13Updated this week
- curPrimers is a tool for trimming primer sequences from amplicon based NGS reads☆18May 26, 2025Updated last year
- app to collapse Pango lineages for reporting☆14Oct 2, 2026Updated last month
- Hybrid Assembler for Plasmids☆10Jul 28, 2022Updated 4 years ago
- Instantaneous Metagenome Taxonomic Profiling with MetaKSSD☆27Nov 3, 2025Updated 11 months ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Sketch-based surveillance platform☆13Updated this week
- ☆18Aug 11, 2025Updated last year
- Summarise nucleotide counts at a set of positions in a BAM file to search for mixtures☆13Apr 5, 2022Updated 4 years ago
- Pipeline for analyzing rare mutations in metagenome-assembled genomes☆10Apr 4, 2025Updated last year
- A pipeline for bioinformatics analysis of bacterial genomes☆33Oct 5, 2026Updated 3 weeks ago
- ☆18Oct 12, 2026Updated 2 weeks ago
- Cython bindings and Python interface to Opal, a SIMD-accelerated database search aligner.☆11Mar 25, 2026Updated 7 months ago
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆36Oct 6, 2026Updated 3 weeks ago
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 3 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Finding regions of similarity between plasmids☆17Jul 15, 2026Updated 3 months ago
- Simulation of Epistasis Local adaptation, with Ancestry and Mate choice☆11Apr 22, 2023Updated 3 years ago
- de Bruijn graph cOrrectiOn from graph aLignment☆11Jul 20, 2020Updated 6 years ago
- All The Bacteria CLI — query 3.2M bacterial genomes (AMR, MLST, assemblies, metadata) from the terminal☆37Sep 2, 2026Updated last month
- Fast, scalable, accurate and accessible Bayesian phylogenetics☆64Oct 22, 2026Updated last week
- VGsim is a fast and scalable simulator of viral genealogies during global pandemic.☆17Apr 18, 2026Updated 6 months ago
- emm Automatic Isolate Labeller☆16Mar 25, 2025Updated last year