Alternatives and similar repositories for sarscov2phylo

Users that are interested in sarscov2phylo are comparing it to the libraries listed below

• jts / ncov-tools
  Small collection of tools for performing quality control on coronavirus sequencing data and genomes
  ☆49Updated last year
• Wytamma / GISAIDR
  Programmatically interact with the GISAID database.
  ☆79Updated 4 months ago
• 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
• 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
• niemasd / ViralMSA
  Reference-guided multiple sequence alignment of viral genomes
  ☆70Updated last month
• neherlab / pan-genome-visualization
  Visualization of the pan-genome output by panX
  ☆65Updated 5 months ago
• epi2me-labs / wf-artic
  ARTIC SARS-CoV-2 workflow and reporting
  ☆50Updated 7 months ago
• sherrillmix / taxonomizr
  Parse NCBI taxonomy and accessions to find taxonomic assignments
  ☆77Updated 4 months ago
• bhattlab / bhattlab_workflows
  Computational workflows for metagenomics tasks, by the Bhatt lab
  ☆47Updated 2 years ago
• katholt / plotTree
  ☆67Updated 9 years ago
• knights-lab / SHOGUN
  SHallow shOtGUN profiler
  ☆53Updated 3 years ago
• husonlab / megan-ce
  MEGAN Community Edition
  ☆72Updated last year
• ToniWestbrook / paladin
  Protein Alignment and Detection Interface
  ☆60Updated last year
• yatisht / usher
  Ultrafast Sample Placement on Existing Trees
  ☆137Updated 3 weeks ago
• niemasd / TreeCluster
  Efficient phylogenetic clustering of viral sequences
  ☆89Updated 2 weeks ago
• zibraproject / zika-pipeline
  The Zika bioinformatics pipeline
  ☆36Updated 5 years ago
• W-L / ProblematicSites_SARS-CoV2
  ☆50Updated 3 years ago
• thednainus / Bayesian_tutorial
  Tutorial on Bayesian phylogenetic analysis
  ☆51Updated 8 years ago
• replikation / poreCov
  SARS-CoV-2 workflow for nanopore sequence data
  ☆42Updated last week
• sanger-pathogens / iva
  de novo virus assembler of Illumina paired reads
  ☆58Updated 4 years ago
• pha4ge / pipeline-resources
  Bioinformatics Pipeline and Visualization resources
  ☆60Updated last year
• COG-UK / grapevine
  Process consensus file for COG-UK data
  ☆14Updated 4 years ago
• arpcard / amr_curation
  A public repository for collective curation of antimicrobial resistance (AMR) genes and mutations. Submit, discuss, and resolve AMR curat…
  ☆63Updated 2 months ago
• GenomicsAotearoa / metagenomics_summer_school
  Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber
  ☆66Updated last year
• evogytis / baltic
  baltic - backronymed adaptable lightweight tree import code for molecular phylogeny manipulation, analysis and visualisation. Development…
  ☆114Updated this week
• merenlab / illumina-utils
  A library and collection of scripts to work with Illumina paired-end data (for CASAVA 1.7+ pipeline).
  ☆93Updated 2 weeks 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 this week