nextstrain / mpox

Related projects ⓘ

Alternatives and complementary repositories for mpox

• PoonLab / covizu
  Rapid analysis and visualization of coronavirus genome variation
  ☆46Updated this week
• cov-lineages / pangolin-data
  Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments
  ☆30Updated last month
• andersen-lab / avian-influenza
  Consensus sequences for U.S. H5N1 clade 2.3.4.4b
  ☆25Updated this week
• epi2me-labs / wf-artic
  ARTIC SARS-CoV-2 workflow and reporting
  ☆49Updated 2 months ago
• INSaFLU / INSaFLU
  INSaFLU-TELEVIR: an free web-based (but also locally installable) bioinformatics suite for virus metagenomic detection and routine genomi…
  ☆33Updated this week
• corneliusroemer / pango_aliasor
  Utility to alias and dealias pango lineages
  ☆21Updated 11 months ago
• artic-network / primer-schemes
  Primer schemes for real-time genome epidemiology
  ☆27Updated last year
• grubaughlab / DENV_pipeline
  ☆15Updated last month
• nextstrain / nextclade_data
  Datasets for https://github.com/nextstrain/nextclade
  ☆32Updated this week
• artic-network / civet
  Cluster Investigation & Virus Epidemiology Tool
  ☆49Updated last year
• maximilianh / multiSub
  Prepares a SARS-CoV-2 submission for GISAID, NCBI or ENA. Can read GISAID or NCBI files, or plain fasta+tsv/csv/xls. Finds files in input…
  ☆35Updated 2 years ago
• pha4ge / pipeline-resources
  Bioinformatics Pipeline and Visualization resources
  ☆54Updated 2 months ago
• W-L / ProblematicSites_SARS-CoV2
  ☆48Updated 2 years ago
• nextstrain / avian-flu
  Nextstrain build for avian influenza viruses
  ☆20Updated this week
• theosanderson / chronumental
  Estimating time trees from very large phylogenies
  ☆24Updated 4 months ago
• alliblk / genepi-book
  ☆20Updated 4 months ago
• Wytamma / GISAIDR
  Programmatically interact with the GISAID database.
  ☆72Updated 2 months ago
• CDCgov / datasets-sars-cov-2
  Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)
  ☆54Updated last year
• CDCgov / seqsender
  Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories
  ☆32Updated this week
• CFSAN-Biostatistics / C-WAP
  SC2 variant detection and composition pipeline
  ☆16Updated last year
• NicolaDM / MAPLE
  MAPLE - a new approximate approach for maximum likelihood phylogenetics at short divergence.
  ☆46Updated 2 weeks ago
• UPHL-BioNGS / Cecret
  Reference-based consensus creation
  ☆50Updated this week
• CDCgov / aquascope
  ☆17Updated last week
• jhuapl-bio / taxtriage
  TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…
  ☆30Updated last week
• tseemann / cgmlst-dists
  🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables
  ☆27Updated last year
• baymlab / wastewater_analysis
  Variant abundance estimation for SARS-CoV-2 in wastewater using RNA-Seq quantification
  ☆17Updated last year
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆29Updated last month
• UPHL-BioNGS / Grandeur
  UPHL's Reference Free Pipeline
  ☆25Updated 2 weeks ago
• BDI-pathogens / phyloscanner
  Phylogenetics between and within hosts at once, all along the genome.
  ☆47Updated last month
• emvolz / treedater
  Scalable relaxed clock phylogenetic dating
  ☆24Updated 7 months ago