VarSkip multiplex PCR designs for SARS-CoV-2 sequencing
☆14Jun 14, 2022Updated 3 years ago
Alternatives and similar repositories for VarSkip
Users that are interested in VarSkip are comparing it to the libraries listed below
Sorting:
- ☆22Feb 2, 2026Updated 3 weeks ago
- SARs-CoV-2 Primer schemes☆16May 14, 2025Updated 9 months ago
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆13Dec 24, 2025Updated 2 months ago
- A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment☆20Nov 12, 2025Updated 3 months ago
- NCBI Pathogen Detection Portal toolkit☆11Sep 6, 2023Updated 2 years ago
- In silico serotyping, finetyping and Bexsero antigen sequence typing of Neisseria meningitidis☆14Feb 19, 2026Updated last week
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆37Jan 22, 2026Updated last month
- 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
- Documentation for analyzing SARS-Cov2 samples.☆12Jun 4, 2020Updated 5 years ago
- 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
- UPHL's Reference Free Pipeline☆27Feb 21, 2026Updated last week
- CFSAN Shigella Typing Pipeline☆15Jul 6, 2023Updated 2 years ago
- StxTyper uses a standardized algorithm to accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.☆17Dec 9, 2025Updated 2 months ago
- Reference-based consensus creation☆58Feb 10, 2026Updated 2 weeks ago
- rapid serotyping of Vibrio parahaemolyticus from whole genome sequencing data using serogroup-specific genes☆10Sep 2, 2021Updated 4 years ago
- Rapid identification of Staphylococcus aureus agr locus type and agr operon variants.☆10Jan 6, 2023Updated 3 years ago
- Finding prophage regions in bacterial genomes using brute force☆22Jan 20, 2023Updated 3 years ago
- SeqWho - A reliable and rapid FASTQ(A) file classifier☆10Jan 21, 2022Updated 4 years ago
- Static website for the PH4AGE alliance☆13Oct 27, 2023Updated 2 years ago
- Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies☆12Jun 30, 2023Updated 2 years ago
- Summarise nucleotide counts at a set of positions in a BAM file to search for mixtures☆13Apr 5, 2022Updated 3 years ago
- interactive barplot for amplicon sequencing☆13Dec 5, 2024Updated last year
- a tool for designing primer panels for multiplex PCR.☆106Feb 5, 2024Updated 2 years ago
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health con…☆61Updated this week
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆29Jul 18, 2025Updated 7 months ago
- SC2 variant detection and composition pipeline☆19Jul 14, 2023Updated 2 years ago
- Read contamination removal☆25Jan 24, 2024Updated 2 years ago
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆32Apr 24, 2025Updated 10 months ago
- C++ tools for NCBI taxonomy tasks☆12Jun 26, 2025Updated 8 months ago
- Nanopore read de-multiplexer☆13Mar 25, 2020Updated 5 years ago
- app to collapse Pango lineages for reporting☆13Dec 9, 2025Updated 2 months ago
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆35Dec 2, 2024Updated last year
- Predict MLST directly from uncorrected long reads☆27Oct 31, 2025Updated 3 months ago
- ARTIC nanopore protocol for nCoV2019 novel coronavirus☆170Mar 22, 2023Updated 2 years ago
- Small collection of tools for performing quality control on coronavirus sequencing data and genomes☆49Apr 25, 2024Updated last year
- A curated database of completed assemblies with taxonomy IDs☆48Updated this week
- viGEN - A bioinformatics pipeline for the exploration of viral RNA in human NGS data☆28Oct 8, 2024Updated last year
- Searching large collections of sequencing data with genome-scale queries☆16Feb 5, 2026Updated 3 weeks ago
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data☆13Jun 12, 2024Updated last year