theiagen / public_health_viral_genomicsLinks
Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, especially SARS-CoV-2
☆41Updated last year
Alternatives and similar repositories for public_health_viral_genomics
Users that are interested in public_health_viral_genomics are comparing it to the libraries listed below
Sorting:
- ☆26Updated 2 years ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆38Updated 2 months ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated last year
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- CRyPTIC data processing pipelines☆34Updated last year
- Fast k-mer based tool for multi locus sequence typing (MLST)☆45Updated 4 years ago
- Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data☆36Updated this week
- Gene-flank analysis tool☆29Updated 8 months ago
- Split Kmer Analysis☆65Updated 3 years ago
- SC2 variant detection and composition pipeline☆17Updated 2 years ago
- Microbial Genome Circular plotting tool for comparative genomics using Circos☆38Updated 2 years ago
- Bioinformatics Pipeline and Visualization resources☆57Updated last year
- INSaFLU-TELEVIR: an free web-based (but also locally installable) bioinformatics suite for virus metagenomic detection and routine genomi…☆37Updated 3 weeks ago
- ☆36Updated 3 years ago
- Intra-species bacterial contamination detection☆25Updated 6 months ago
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health con…☆55Updated this week
- Assembling the cause of phenotypes and genotypes from NGS data☆29Updated 5 years ago
- reference-based long read assemblies of bacterial genomes☆50Updated 4 years ago
- hecatomb is a virome analysis pipeline for analysis of Illumina sequence data☆59Updated 3 months ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆56Updated 4 years ago
- In-depth characterization and annotation of differences between two sets of DNA sequences☆62Updated 5 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- InterARTIC - An interactive local web application for viral whole genome sequencing utilising the artic network pipelines..☆31Updated last year
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆57Updated 2 weeks ago
- whole genome MLST analysis☆46Updated 2 months ago
- Phylogeny Enhanded Prediction of PAN-genome☆42Updated 5 years ago
- ☆53Updated 4 years ago
- Output FASTQ summary statistics in JSON format☆30Updated 2 years ago
- This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…☆59Updated 4 years ago
- Recombination-free trees☆59Updated 5 months ago