theiagen / public_health_bioinformaticsLinks
Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health concern.
☆56Updated this week
Alternatives and similar repositories for public_health_bioinformatics
Users that are interested in public_health_bioinformatics are comparing it to the libraries listed below
Sorting:
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, es…☆41Updated last year
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆42Updated last month
- hecatomb is a virome analysis pipeline for analysis of Illumina sequence data☆59Updated 2 months ago
- Microbiome classification pipeline☆65Updated 6 months ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆46Updated 2 years ago
- ☆26Updated 2 years ago
- Bioinformatics Pipeline and Visualization resources☆60Updated last year
- SC2 variant detection and composition pipeline☆17Updated 2 years ago
- Primer schemes for real-time genome epidemiology☆30Updated 2 years ago
- Antibiotic resistance prediction in minutes☆112Updated 11 months ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- Snakemake workflow for metagenomic classification with Kraken2☆66Updated 2 years ago
- nanodisco: a toolbox for discovering and exploiting multiple types of DNA methylation from individual bacteria and microbiomes using nano…☆70Updated 3 years ago
- Reference-free clustering and consensus forming of long-read amplicon sequencing☆60Updated 7 months ago
- Harmonization of AMR predictor tool outputs☆26Updated 10 months ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆69Updated 4 years ago
- VGEA (Viral Genomes Easily Analyzed) is a pipeline for analysis of RNA virus next-generation sequencing data.☆20Updated 4 years ago
- SeqSero2☆39Updated last month
- A scalable bacterial genome assembly, annotation and analysis pipeline☆75Updated last year
- Fast k-mer based tool for multi locus sequence typing (MLST)☆45Updated 5 years ago
- Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data☆44Updated last month
- Split Kmer Analysis☆65Updated 3 years ago
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆44Updated 3 months ago
- ARTIC SARS-CoV-2 workflow and reporting☆50Updated 6 months ago
- A toolkit for prokaryotic comparative genomics☆51Updated last month
- Split k-mer analysis – version 2☆99Updated last month
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆56Updated 3 years ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Microbial Genome Circular plotting tool for comparative genomics using Circos☆38Updated 2 years ago
- Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing☆21Updated 2 years ago