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

• artic-network / primer-schemes
  Primer schemes for real-time genome epidemiology
  ☆27Updated last year
• theiagen / public_health_bacterial_genomics
  ☆27Updated last year
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆43Updated 4 years ago
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆28Updated 6 months ago
• bvalot / pyMLST
  whole genome MLST analysis
  ☆40Updated 8 months ago
• ngs-fzb / MTBseq_source
  MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumin…
  ☆42Updated 5 months ago
• phac-nml / sistr_cmd
  SISTR (Salmonella In Silico Typing Resource) command-line tool
  ☆26Updated last month
• Serka-M / Digester-MultiSequencing
  Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing
  ☆21Updated last year
• peterk87 / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆23Updated last week
• katholt / RedDog
  ☆36Updated 2 years ago
• UPHL-BioNGS / Cecret
  Reference-based consensus creation
  ☆51Updated this week
• jodyphelan / tbdb
  Standard database for the TBProfiler tool
  ☆29Updated last month
• Psy-Fer / interARTIC
  InterARTIC - An interactive local web application for viral whole genome sequencing utilising the artic network pipelines..
  ☆30Updated last year
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆30Updated last month
• CFIA-NCFAD / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆18Updated last week
• epi2me-labs / wf-artic
  ARTIC SARS-CoV-2 workflow and reporting
  ☆49Updated last month
• pha4ge / pipeline-resources
  Bioinformatics Pipeline and Visualization resources
  ☆55Updated 4 months ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆63Updated 2 years ago
• virus-evolution / gofasta
  ☆35Updated 5 months ago
• bioinfo-ut / PlasmidSeeker
  A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
  ☆35Updated 3 years ago
• UPHL-BioNGS / Grandeur
  UPHL's Reference Free Pipeline
  ☆25Updated this week
• CFSAN-Biostatistics / C-WAP
  SC2 variant detection and composition pipeline
  ☆16Updated last year
• USDA-VS / GenoFLU
  Influenza data pipeline to automate genotyping assignment
  ☆22Updated 2 months ago
• bonsai-team / Porechop_ABI
  Adapter trimmer for Oxford Nanopore reads using ab initio method
  ☆38Updated last month
• xinehc / melon
  Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
  ☆34Updated last month
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆76Updated 2 years ago
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆91Updated 3 months ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆53Updated last year
• jonas-fuchs / varVAMP
  Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.
  ☆34Updated 4 months ago
• moshi4 / MGCplotter
  Microbial Genome Circular plotting tool for comparative genomics using Circos
  ☆37Updated last year