Alternatives and similar repositories for sc2rf

Users that are interested in sc2rf are comparing it to the libraries listed below

• CFSAN-Biostatistics / C-WAP
  SC2 variant detection and composition pipeline
  ☆17Updated last year
• artic-network / civet
  Cluster Investigation & Virus Epidemiology Tool
  ☆50Updated last week
• DOH-JDJ0303 / vaper
  Viral (meta)-genome assembly pipeline.
  ☆12Updated 3 weeks ago
• andersen-lab / avian-influenza
  Consensus sequences for U.S. H5N1 clade 2.3.4.4b
  ☆32Updated last week
• richardmleggett / MARTi
  Metagenomic Analysis in Real Time
  ☆24Updated this week
• asmngs / asmngs20
  ASMNGS20 - 2020 Conference Details
  ☆15Updated 3 years ago
• DOH-JDJ0303 / bigbacter-nf
  Bacterial surveillance pipeline.
  ☆24Updated 2 weeks ago
• USDA-VS / GenoFLU
  Influenza data pipeline to automate genotyping assignment
  ☆35Updated 3 weeks ago
• xavierdidelot / BactDating
  Bayesian inference of ancestral dates on bacterial phylogenetic trees
  ☆88Updated last month
• W-L / ProblematicSites_SARS-CoV2
  ☆49Updated 3 years ago
• oschwengers / referenceseeker
  Rapid determination of appropriate reference genomes.
  ☆97Updated 5 months ago
• sdellicour / seraphim
  R package for studying environmental rasters and phylogenetic informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al.…
  ☆35Updated 2 months ago
• virus-evolution / gofasta
  ☆36Updated 2 months ago
• rrwick / Verticall
  Recombination-free trees
  ☆58Updated 3 months ago
• corneliusroemer / pango_aliasor
  Utility to alias and dealias pango lineages
  ☆22Updated last year
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆60Updated 4 months ago
• cov-lineages / pangolin-data
  Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments
  ☆31Updated last week
• avierstr / amplicon_sorter
  Sorts amplicons from Nanopore sequencing data based on similarity
  ☆38Updated 3 weeks ago
• pathoplexus / pathoplexus
  An open-source pathogen sequence database dedicated to equitable sharing, transparent governance, & empowering global public health.
  ☆40Updated last week
• pha4ge / pipeline-resources
  Bioinformatics Pipeline and Visualization resources
  ☆56Updated 9 months ago
• alliblk / genepi-book
  ☆21Updated last year
• noemielefrancq / Phylowave_Learning-fitness-dynamics-pathogens-in-phylogenies
  Code for the paper "Learning the fitness dynamics of pathogens from phylogenies"
  ☆18Updated 2 months ago
• artic-network / primer-schemes
  Primer schemes for real-time genome epidemiology
  ☆29Updated 2 years ago
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆95Updated 9 months ago
• gtonkinhill / fastbaps
  A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data
  ☆62Updated 2 years ago
• flass / pantagruel
  a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome
  ☆49Updated 2 years ago
• BDI-pathogens / phyloscanner
  Phylogenetics between and within hosts at once, all along the genome.
  ☆49Updated 8 months ago
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆66Updated 7 months ago
• gbouras13 / dnaapler
  Reorients assembled microbial sequences
  ☆121Updated 3 months ago
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆38Updated 2 months ago