W-L / ProblematicSites_SARS-CoV2Links
☆50Updated 3 years ago
Alternatives and similar repositories for ProblematicSites_SARS-CoV2
Users that are interested in ProblematicSites_SARS-CoV2 are comparing it to the libraries listed below
Sorting:
- A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…☆91Updated 2 years ago
- Small collection of tools for performing quality control on coronavirus sequencing data and genomes☆49Updated last year
- Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)☆59Updated 2 years ago
- ARTIC SARS-CoV-2 workflow and reporting☆50Updated 9 months ago
- Primer schemes for real-time genome epidemiology☆30Updated 2 years ago
- Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments☆32Updated 3 weeks ago
- Rapid analysis and visualization of coronavirus genome variation☆48Updated 2 weeks ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆103Updated last week
- Reference-based consensus creation☆58Updated this week
- SEER, reimplemented in python 🐍🔮☆130Updated 8 months ago
- Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.☆51Updated 4 years ago
- INSaFLU-TELEVIR: an free web-based (but also locally installable) bioinformatics suite for virus metagenomic detection and routine genomi…☆41Updated this week
- Process consensus file for COG-UK data☆13Updated 4 years ago
- A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads☆67Updated 4 years ago
- MAPLE - a new approximate approach for maximum likelihood phylogenetics at short divergence.☆57Updated 3 months ago
- Phylogenetics between and within hosts at once, all along the genome.☆50Updated last year
- Efficient phylogenetic clustering of viral sequences☆91Updated 2 months ago
- ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refse…☆103Updated last week
- 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…☆36Updated 3 years ago
- A bioinformatic toolkit to align genome assemblies into pangenome graphs☆121Updated 3 weeks ago
- This RAPT repository has been retired as of December 2024. NCBI's Read assembly and Annotation Pipeline Tool (RAPT) was a pilot service.☆58Updated 10 months ago
- Rapid determination of appropriate reference genomes.☆99Updated last year
- Bioinformatics Pipeline and Visualization resources☆60Updated last year
- A toolbox for pangenome analysis and threshold evaluation.☆99Updated 3 years ago
- Recentrifuge: robust comparative analysis and contamination removal for metagenomics☆99Updated last month
- A public repository for collective curation of antimicrobial resistance (AMR) genes and mutations. Submit, discuss, and resolve AMR curat…☆63Updated 4 months ago
- SARS-CoV-2 workflow for nanopore sequence data☆42Updated last month
- Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data☆49Updated 2 weeks ago
- Simple bacterial assembly and annotation pipeline☆81Updated 2 weeks ago
- Global phylogenies of SARS-CoV-2 sequences☆85Updated 2 years ago