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 10 months ago
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 last year
- Fast k-mer based tool for multi locus sequence typing (MLST)☆44Updated 4 years ago
- SC2 variant detection and composition pipeline☆17Updated last year
- Bioinformatics Pipeline and Visualization resources☆56Updated 9 months ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆37Updated 3 weeks ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing☆21Updated 2 years ago
- Standard database for the TBProfiler tool☆29Updated last week
- Primer schemes for real-time genome epidemiology☆29Updated 2 years ago
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆38Updated 3 weeks ago
- A toolkit for prokaryotic comparative genomics☆49Updated 5 months ago
- Split Kmer Analysis☆65Updated 3 years ago
- de novo virus assembler of Illumina paired reads☆56Updated 4 years ago
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- ☆36Updated 3 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated 11 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated this week
- Influenza genome analysis Nextflow workflow☆22Updated 2 months ago
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆41Updated 3 years ago
- ☆52Updated 4 years ago
- InterARTIC - An interactive local web application for viral whole genome sequencing utilising the artic network pipelines..☆31Updated last year
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Updated 2 years ago
- Snakemake pipeline for simulating shotgun metagenomic samples☆23Updated this week
- LYVE-SET, a method of using hqSNPs to create a phylogeny, especially for outbreak investigations☆27Updated 10 months ago
- hecatomb is a virome analysis pipeline for analysis of Illumina sequence data☆57Updated last month
- Recombination-free trees☆58Updated 3 months ago
- UPHL's Reference Free Pipeline☆26Updated last month
- Assembling the cause of phenotypes and genotypes from NGS data☆29Updated 5 years ago
- Harmonization of AMR predictor tool outputs☆25Updated 5 months ago
- MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumin…☆44Updated 10 months ago