cov-lineages / scorpio

Related projects: ⓘ

• artic-network / civet
  Cluster Investigation & Virus Epidemiology Tool
  ☆48Updated last year
• cov-lineages / pangolin-data
  Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments
  ☆28Updated last month
• W-L / ProblematicSites_SARS-CoV2
  ☆48Updated 2 years ago
• cov-lineages / constellations
  ☆43Updated 9 months ago
• nextstrain / avian-flu
  Nextstrain build for avian influenza viruses
  ☆19Updated this week
• BDI-pathogens / phyloscanner
  Phylogenetics between and within hosts at once, all along the genome.
  ☆44Updated 3 weeks ago
• jts / ncov-tools
  Small collection of tools for performing quality control on coronavirus sequencing data and genomes
  ☆47Updated 4 months ago
• artic-network / primer-schemes
  Primer schemes for real-time genome epidemiology
  ☆27Updated last year
• niemasd / ViralMSA
  Reference-guided multiple sequence alignment of viral genomes
  ☆58Updated last week
• roblanf / sarscov2phylo
  Global phylogenies of SARS-CoV-2 sequences
  ☆86Updated 10 months ago
• COG-UK / grapevine
  Process consensus file for COG-UK data
  ☆14Updated 3 years ago
• alliblk / genepi-book
  ☆19Updated 2 months ago
• pha4ge / pipeline-resources
  Bioinformatics Pipeline and Visualization resources
  ☆53Updated 3 weeks ago
• NicolaDM / MAPLE
  MAPLE - a new approximate approach for maximum likelihood phylogenetics at short divergence.
  ☆43Updated last month
• epi2me-labs / wf-artic
  ARTIC SARS-CoV-2 workflow and reporting
  ☆47Updated this week
• CDCgov / seqsender
  Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories
  ☆32Updated last week
• GenomicsAotearoa / metagenomics_summer_school
  Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber
  ☆51Updated 2 weeks ago
• CDCgov / datasets-sars-cov-2
  Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)
  ☆54Updated 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
• corneliusroemer / pango_aliasor
  Utility to alias and dealias pango lineages
  ☆21Updated 9 months ago
• CDCgov / aquascope
  ☆16Updated this week
• bhattlab / bhattlab_workflows
  Computational workflows for metagenomics tasks, by the Bhatt lab
  ☆46Updated last year
• sanger-pathogens / iva
  de novo virus assembler of Illumina paired reads
  ☆53Updated 3 years ago
• sdwfrost / gbmunge
  Munge GenBank files into FASTA and tab-separated metadata
  ☆13Updated 9 months ago
• Wytamma / GISAIDR
  Programmatically interact with the GISAID database.
  ☆69Updated 7 months ago
• flass / pantagruel
  a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome
  ☆46Updated last year
• peterk87 / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆22Updated last month
• replikation / poreCov
  SARS-CoV-2 workflow for nanopore sequence data
  ☆39Updated last week
• jonas-fuchs / SARS-CoV-2-analyses
  Collection of R scripts for SARS-CoV-2 (variant) analyses
  ☆12Updated last year
• andersen-lab / bjorn
  ☆20Updated 3 weeks ago