Alternatives and similar repositories for variant_definitions

Users that are interested in variant_definitions are comparing it to the libraries listed below

• artic-network / civet
  Cluster Investigation & Virus Epidemiology Tool
  ☆50Updated 5 months ago
• xavierdidelot / TransPhylo
  Reconstruction of transmission trees using genomic data
  ☆68Updated 2 years ago
• andersen-lab / avian-influenza
  Consensus sequences for U.S. H5N1 clade 2.3.4.4b
  ☆36Updated 2 weeks ago
• roblanf / sarscov2phylo
  Global phylogenies of SARS-CoV-2 sequences
  ☆85Updated 2 years ago
• cov-lineages / pangolin-data
  Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments
  ☆32Updated last month
• Wytamma / GISAIDR
  Programmatically interact with the GISAID database.
  ☆79Updated 4 months ago
• CDCgov / datasets-sars-cov-2
  Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)
  ☆58Updated 2 years ago
• sdellicour / seraphim
  R package for studying phylogenetically-informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al., submitted)
  ☆37Updated last week
• BDI-pathogens / phyloscanner
  Phylogenetics between and within hosts at once, all along the genome.
  ☆50Updated last year
• lskatz / awesome-bioinformatics-education
  resources for bioinformatics education
  ☆95Updated 6 months ago
• W-L / ProblematicSites_SARS-CoV2
  ☆50Updated 3 years ago
• jts / ncov-tools
  Small collection of tools for performing quality control on coronavirus sequencing data and genomes
  ☆49Updated last year
• lenaschimmel / sc2rf
  SARS-Cov-2 Recombinant Finder for fasta sequences
  ☆50Updated 3 years ago
• andersen-lab / Freyja
  Depth-weighted De-Mixing
  ☆125Updated this week
• yatisht / usher
  Ultrafast Sample Placement on Existing Trees
  ☆137Updated last month
• cov-lineages / scorpio
  serious constellations of reoccurring phylogenetically-independent origin
  ☆39Updated 2 years ago
• CDCgov / tostadas
  🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission
  ☆28Updated 2 months ago
• pha4ge / pipeline-resources
  Bioinformatics Pipeline and Visualization resources
  ☆60Updated last year
• gtonkinhill / rhierbaps
  rhierbaps: R implementation of hierBAPS
  ☆36Updated 4 years ago
• PoonLab / covizu
  Rapid analysis and visualization of coronavirus genome variation
  ☆48Updated this week
• pierrebarbera / epa-ng
  Massively parallel phylogenetic placement of genetic sequences
  ☆86Updated 3 years ago
• drostlab / orthologr
  Genome wide orthology inference and dNdS estimation
  ☆96Updated 3 months ago
• ncbi / rapt
  This RAPT repository has been retired as of December 2024. NCBI's Read assembly and Annotation Pipeline Tool (RAPT) was a pilot service.
  ☆58Updated 8 months ago
• knights-lab / SHOGUN
  SHallow shOtGUN profiler
  ☆53Updated 3 years ago
• GATB / simka
  Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.
  ☆51Updated 3 years 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…
  ☆36Updated 3 years ago
• thednainus / Bayesian_tutorial
  Tutorial on Bayesian phylogenetic analysis
  ☆51Updated 8 years ago
• FePhyFoFum / phyx
  phylogenetics tools for linux (and other mostly posix compliant) computers
  ☆122Updated 10 months ago
• MetaSUB / CAP2
  ☆12Updated 2 years ago
• corneliusroemer / pango_aliasor
  Utility to alias and dealias pango lineages
  ☆23Updated last year