Alternatives and similar repositories for avian-influenza:

Users that are interested in avian-influenza are comparing it to the libraries listed below

• grubaughlab / DENV_pipeline
  ☆16Updated this week
• nextstrain / avian-flu
  Nextstrain build for avian influenza viruses
  ☆25Updated last week
• USDA-VS / GenoFLU
  Influenza data pipeline to automate genotyping assignment
  ☆30Updated last month
• broadinstitute / delphy
  Fast, scalable, accurate and accessible Bayesian phylogenetics
  ☆36Updated last week
• alliblk / genepi-book
  ☆21Updated 9 months ago
• corneliusroemer / pango_aliasor
  Utility to alias and dealias pango lineages
  ☆22Updated last year
• flu-crew / TreeSort
  Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.
  ☆12Updated last month
• cov-lineages / pangolin-data
  Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments
  ☆30Updated this week
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆37Updated 4 months ago
• CDCgov / aquascope
  ☆20Updated this week
• theosanderson / chronumental
  Estimating time trees from very large phylogenies
  ☆26Updated 8 months ago
• lenaschimmel / sc2rf
  SARS-Cov-2 Recombinant Finder for fasta sequences
  ☆49Updated 2 years ago
• pathoplexus / pathoplexus
  An open-source pathogen sequence database dedicated to equitable sharing, transparent governance, & empowering global public health.
  ☆33Updated this week
• sdellicour / seraphim
  R package for studying environmental rasters and phylogenetic informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al.…
  ☆33Updated last month
• xavierdidelot / TransPhylo
  Reconstruction of transmission trees using genomic data
  ☆62Updated last year
• flass / pantagruel
  a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome
  ☆48Updated 2 years ago
• UPHL-BioNGS / Grandeur
  UPHL's Reference Free Pipeline
  ☆26Updated last month
• DOH-JDJ0303 / bigbacter-nf
  Bacterial surveillance pipeline.
  ☆24Updated 2 months ago
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆64Updated 5 months ago
• richardmleggett / MARTi
  Metagenomic Analysis in Real Time
  ☆23Updated 2 weeks ago
• gtonkinhill / fastbaps
  A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data
  ☆62Updated 2 years ago
• virus-evolution / gofasta
  ☆35Updated last month
• noemielefrancq / Phylowave_Learning-fitness-dynamics-pathogens-in-phylogenies
  Code for the paper "Learning the fitness dynamics of pathogens from phylogenies"
  ☆16Updated 2 weeks ago
• corneliusroemer / pango-sequences
  Consensus sequences for each Pango lineage
  ☆21Updated this week
• CFSAN-Biostatistics / C-WAP
  SC2 variant detection and composition pipeline
  ☆17Updated last year
• jhuapl-bio / taxtriage
  TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…
  ☆34Updated last week
• artic-network / civet
  Cluster Investigation & Virus Epidemiology Tool
  ☆50Updated 2 years ago
• lskatz / lyve-SET
  LYVE-SET, a method of using hqSNPs to create a phylogeny, especially for outbreak investigations
  ☆26Updated 7 months ago
• susiegriggo / Phynteny
  Predict the function of phage hypothetical proteins using an LSTM model trained with Phage Synteny
  ☆48Updated 3 months ago
• artic-network / primer-schemes
  Primer schemes for real-time genome epidemiology
  ☆27Updated last year