RIVM-bioinformatics / AmpliGoneView external linksLinks
A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment
☆20Nov 12, 2025Updated 3 months ago
Alternatives and similar repositories for AmpliGone
Users that are interested in AmpliGone are comparing it to the libraries listed below
Sorting:
- NCBI Pathogen Detection Portal toolkit☆11Sep 6, 2023Updated 2 years ago
- app to collapse Pango lineages for reporting☆12Dec 9, 2025Updated 2 months ago
- QA/QC pipeline for a MiSeq/HiSeq/Ion Torrent/assembly-only run☆12Dec 2, 2024Updated last year
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆48Feb 3, 2026Updated last week
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- Real-time species-typing visualisation for nanopore data.☆13Apr 11, 2023Updated 2 years ago
- VarSkip multiplex PCR designs for SARS-CoV-2 sequencing☆14Jun 14, 2022Updated 3 years ago
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆37Jan 22, 2026Updated 3 weeks ago
- Read contamination removal☆25Jan 24, 2024Updated 2 years ago
- Static website for the PH4AGE alliance☆13Oct 27, 2023Updated 2 years ago
- ☆11Jun 29, 2023Updated 2 years ago
- Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies☆12Jun 30, 2023Updated 2 years ago
- Nanopore read de-multiplexer☆13Mar 25, 2020Updated 5 years ago
- In silico serotyping, finetyping and Bexsero antigen sequence typing of Neisseria meningitidis☆14Feb 2, 2025Updated last year
- Colinear block visualisation tool☆31Jan 17, 2024Updated 2 years ago
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆62Updated this week
- High-quality Nanopore-only genome polisher☆69Aug 16, 2024Updated last year
- Finding prophage regions in bacterial genomes using brute force☆22Jan 20, 2023Updated 3 years ago
- Documentation for analyzing SARS-Cov2 samples.☆11Jun 4, 2020Updated 5 years ago
- 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 last year
- An SRA tool that takes as input local fastq file from a clinical infection sample, identifies and removes any significant human read, and…☆51Jul 24, 2025Updated 6 months ago
- Strip reads from Oxford Nanopore FAST5 files if they meet certain criteria☆14Jul 29, 2021Updated 4 years ago
- Intra-species bacterial contamination detection☆25Feb 5, 2026Updated last week
- Basestack is a platform for rapid and real time analysis of NGS data. It provides a executable application that connects standard bionfor…☆27Jan 7, 2025Updated last year
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- The NCBI SARS-CoV-2 Variant Calling (SC2VC) Pipeline allows calling high-confidence variants from SARS-CoV-2 NGS data in a standardized f…☆14Apr 21, 2023Updated 2 years ago
- Script for parsing SAM/BAM files for coverage statistics☆16Jun 13, 2023Updated 2 years ago
- Repo for PrimerSchemes☆17Dec 18, 2025Updated last month
- Pipeline to automatically analyse SARS-CoV-2 Whole genome sequencing Illumina data obtained using EasySeq SARS-CoV-2/COVID-19 Whole Geno…☆15Jul 26, 2022Updated 3 years ago
- Genomic Assemblies Merger for NGS☆26Nov 10, 2023Updated 2 years ago
- UPHL's Reference Free Pipeline☆27Updated this week
- Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment☆16Dec 5, 2018Updated 7 years ago
- Hardware Accelerated Read Until☆17Sep 30, 2025Updated 4 months ago
- Viral genome coverage evaluation for metagenomic diagnostics☆27Aug 19, 2025Updated 5 months ago
- frame-shift correction for long-read (meta)genomics☆33Dec 11, 2023Updated 2 years ago
- Predict MLST directly from uncorrected long reads☆27Oct 31, 2025Updated 3 months ago
- ☆16May 22, 2023Updated 2 years ago
- Metagenomics/viromics pipeline that focuses on automation, user-friendliness and a clear audit trail. Jovian aims to empower classical bi…☆18Sep 1, 2023Updated 2 years ago
- µbinfie blog☆18Jul 21, 2025Updated 6 months ago