cov-lineages / constellations

Related projects: ⓘ

• UPHL-BioNGS / Cecret
  Reference-based consensus creation
  ☆48Updated last week
• variant-database / vdb
  A SARS-CoV-2 Mutation Pattern Query Tool
  ☆17Updated last year
• epi2me-labs / wf-artic
  ARTIC SARS-CoV-2 workflow and reporting
  ☆47Updated this week
• artic-network / primer-schemes
  Primer schemes for real-time genome epidemiology
  ☆27Updated last year
• COG-UK / grapevine
  Process consensus file for COG-UK data
  ☆14Updated 3 years ago
• shandley / hecatomb
  hecatomb is a virome analysis pipeline for analysis of Illumina sequence data
  ☆54Updated 3 months ago
• oschwengers / asap
  A scalable bacterial genome assembly, annotation and analysis pipeline
  ☆70Updated 9 months ago
• 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
• alliblk / genepi-book
  ☆19Updated 2 months ago
• replikation / poreCov
  SARS-CoV-2 workflow for nanopore sequence data
  ☆39Updated last week
• cov-lineages / pangolin-data
  Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments
  ☆28Updated last month
• pha4ge / pipeline-resources
  Bioinformatics Pipeline and Visualization resources
  ☆53Updated 3 weeks ago
• W-L / ProblematicSites_SARS-CoV2
  ☆48Updated 2 years ago
• sanger-pathogens / iva
  de novo virus assembler of Illumina paired reads
  ☆53Updated 3 years ago
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆42Updated 4 years ago
• bhattlab / bhattlab_workflows
  Computational workflows for metagenomics tasks, by the Bhatt lab
  ☆46Updated last year
• Wytamma / GISAIDR
  Programmatically interact with the GISAID database.
  ☆69Updated 7 months ago
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆75Updated 2 years ago
• CFSAN-Biostatistics / C-WAP
  SC2 variant detection and composition pipeline
  ☆16Updated last year
• flass / pantagruel
  a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome
  ☆46Updated last year
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆69Updated 3 years ago
• christophertbrown / iRep
  scripts for estimating bacteria replication rates based on population genome copy number variation
  ☆68Updated 4 years ago
• denglab / SeqSero2
  SeqSero2
  ☆33Updated 5 months ago
• AllTheBacteria / AllTheBacteria
  Follow up to Grace Blackwell's 661k dataset, for 2023
  ☆75Updated last week
• virus-evolution / gofasta
  ☆31Updated last month
• bluenote-1577 / sylph
  ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.
  ☆136Updated 2 weeks ago
• jodyphelan / tbdb
  Standard database for the TBProfiler tool
  ☆28Updated 3 weeks ago
• corneliusroemer / pango-sequences
  Consensus sequences for each Pango lineage
  ☆19Updated last week
• CDCgov / mycosnp-nf
  CDCgov/mycosnp-nf
  ☆36Updated last week
• pha4ge / hAMRonization_workflow
  Harmonization of AMR predictor tool outputs
  ☆20Updated 10 months ago
• MDU-PHL / abritamr
  A pipeline for running AMRfinderPlus and collating results into functional classes
  ☆68Updated last month