Alternatives and similar repositories for pangolin-data

Users that are interested in pangolin-data are comparing it to the libraries listed below

• W-L / ProblematicSites_SARS-CoV2
  ☆49Updated 3 years ago
• CFSAN-Biostatistics / C-WAP
  SC2 variant detection and composition pipeline
  ☆17Updated last year
• pathoplexus / pathoplexus
  An open-source pathogen sequence database dedicated to equitable sharing, transparent governance, & empowering global public health.
  ☆36Updated this week
• artic-network / civet
  Cluster Investigation & Virus Epidemiology Tool
  ☆50Updated this week
• MDU-PHL / abritamr
  A pipeline for running AMRfinderPlus and collating results into functional classes
  ☆78Updated 8 months ago
• artic-network / primer-schemes
  Primer schemes for real-time genome epidemiology
  ☆27Updated last year
• fabou-uobaf / VaQuERo
  SARS-CoV-2 (Va)riant (Qu)antification in s(E)wage, designed for (Ro)bustness
  ☆13Updated last month
• DOH-JDJ0303 / bigbacter-nf
  Bacterial surveillance pipeline.
  ☆24Updated this week
• simonrharris / SKA
  Split Kmer Analysis
  ☆64Updated 2 years ago
• virus-evolution / gofasta
  ☆35Updated last month
• richardmleggett / MARTi
  Metagenomic Analysis in Real Time
  ☆24Updated last month
• lenaschimmel / sc2rf
  SARS-Cov-2 Recombinant Finder for fasta sequences
  ☆49Updated 2 years ago
• gtonkinhill / fastbaps
  A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data
  ☆62Updated 2 years ago
• jodyphelan / tbdb
  Standard database for the TBProfiler tool
  ☆29Updated 2 months ago
• andersen-lab / avian-influenza
  Consensus sequences for U.S. H5N1 clade 2.3.4.4b
  ☆31Updated this week
• pha4ge / pipeline-resources
  Bioinformatics Pipeline and Visualization resources
  ☆55Updated 8 months ago
• flass / pantagruel
  a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome
  ☆48Updated 2 years ago
• xavierdidelot / TransPhylo
  Reconstruction of transmission trees using genomic data
  ☆62Updated last year
• andersen-lab / Freyja
  Depth-weighted De-Mixing
  ☆114Updated this week
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆38Updated last month
• epi2me-labs / wf-artic
  ARTIC SARS-CoV-2 workflow and reporting
  ☆51Updated 3 weeks ago
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆76Updated 3 years ago
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆60Updated 2 months ago
• CDCgov / aquascope
  ☆20Updated last month
• Wytamma / GISAIDR
  Programmatically interact with the GISAID database.
  ☆76Updated last month
• tseemann / cgmlst-dists
  🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables
  ☆27Updated last year
• CDCgov / datasets-sars-cov-2
  Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)
  ☆54Updated 2 years ago
• avierstr / amplicon_sorter
  Sorts amplicons from Nanopore sequencing data based on similarity
  ☆37Updated 2 months ago
• flu-crew / TreeSort
  Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.
  ☆13Updated last month
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆114Updated 11 months ago