Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens
☆40Apr 6, 2026Updated 3 months ago
Alternatives and similar repositories for Olivar
Users that are interested in Olivar are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated 3 weeks ago
- a tool for designing primer panels for multiplex PCR.☆108Feb 5, 2024Updated 2 years ago
- finding conserved regions in highly diverse genomes☆16May 25, 2026Updated last month
- ☆30Mar 6, 2025Updated last year
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆52Mar 23, 2026Updated 3 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.
- Repo for PrimerSchemes☆17Updated this week
- Hybridization probe design for targeted genomic sequencing of diverse and hypervariable viral taxa☆25May 30, 2023Updated 3 years ago
- VarSkip multiplex PCR designs for SARS-CoV-2 sequencing☆14Jun 14, 2022Updated 4 years ago
- VIGOR4☆22Aug 15, 2025Updated 10 months ago
- FluMut is a command-line tool to find markers of interest in H5N1 avian influenza viruses.☆15Jun 23, 2026Updated 2 weeks ago
- A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment☆20Nov 12, 2025Updated 7 months ago
- SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity☆13Aug 14, 2023Updated 2 years ago
- Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data☆53Jun 22, 2026Updated 2 weeks ago
- interactive barplot for amplicon sequencing☆13Dec 5, 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.
- Fast viral consensus genome reconstruction☆27Jun 19, 2026Updated 2 weeks ago
- Reference-based consensus creation☆61Jul 1, 2026Updated last week
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆42Updated this week
- Basecalling configuration prediction through FASTQ files☆33Mar 17, 2026Updated 3 months ago
- This repository houses the code to run SURPI+, a rapid computational pipeline for comprehensive identification of pathogens from clinical…☆43Nov 20, 2019Updated 6 years ago
- The ARTIC fieldbioinformatics pipeline☆134Updated this week
- Predict MLST directly from uncorrected long reads☆27Oct 31, 2025Updated 8 months ago
- ☆18Jul 27, 2023Updated 2 years ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆30Jul 18, 2025Updated 11 months 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.
- Optimise PCR primer-set grouping for genetics research☆18Jun 3, 2026Updated last month
- SARs-CoV-2 Primer schemes☆16May 14, 2025Updated last year
- software to identify primers that can distinguish genomes☆20Jan 23, 2026Updated 5 months ago
- PoSeiDon: positive selection detection and recombination analysis pipeline☆40Sep 22, 2025Updated 9 months ago
- Rapid determination of appropriate reference genomes.☆102Jan 22, 2025Updated last year
- Retrieve HIVdb algorithm as XML and apply locally to HIV sequences☆14Jun 27, 2026Updated last week
- Surveillance of pathogens using population genomics and sequencing☆61Apr 30, 2026Updated 2 months ago
- Finding prophage regions in bacterial genomes using brute force☆22Jan 20, 2023Updated 3 years ago
- mGEMS Genomic epidemiology with mixed samples☆17Sep 4, 2024Updated last year
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Automatically design multiplex PCR primer pairs for diverse templates☆36May 23, 2024Updated 2 years ago
- Ultra-fast preprocessing and quality control for long-read sequencing data☆232Sep 6, 2025Updated 10 months ago
- An automated assembly pipeline for microbial genomes☆19Jun 9, 2026Updated last month
- PanTax: Strain-level metagenomic profiling using pangenome graphs☆54Jun 10, 2026Updated 3 weeks ago
- Bacterial Operon Finder for Functional Organization☆15Nov 14, 2023Updated 2 years ago
- A repo with just adapter sequences☆15Jul 7, 2025Updated last year
- ARTIC SARS-CoV-2 workflow and reporting☆51Apr 25, 2025Updated last year