Alternatives and similar repositories for bugwas:

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

• jessiewu / bacterialGWAS
  A pipeline for performing genome-wide association tests for bacterial genomes.
  ☆28Updated 6 years ago
• janepipistrelle / bacterial_GWAS_tutorial
  Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop
  ☆19Updated 8 years ago
• marbl / harvest
  ☆52Updated 3 years ago
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆26Updated last month
• santeripuranen / SpydrPick
  SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.
  ☆13Updated 2 years ago
• CAMI-challenge / OPAL
  OPAL: Open-community Profiling Assessment tooL
  ☆27Updated this week
• tseemann / ekidna
  Assembly based core genome SNP alignments for bacteria
  ☆25Updated 5 years ago
• sanger-pathogens / plasmidtron
  Assembling the cause of phenotypes and genotypes from NGS data
  ☆29Updated 4 years ago
• tseemann / berokka
  🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
  ☆26Updated 5 years ago
• chrisquince / STRONG
  Strain Resolution ON Graphs
  ☆47Updated last year
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆51Updated 3 years ago
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆28Updated 6 months ago
• rrwick / Verticall
  Recombination-free trees
  ☆56Updated last year
• simonrharris / SKA
  Split Kmer Analysis
  ☆63Updated 2 years ago
• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆47Updated 3 years ago
• xinehc / melon
  Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
  ☆34Updated last month
• zheminzhou / SPARSE
  Strain Prediction and Analysis with Representative SEquence
  ☆18Updated last month
• AliTVTeam / AliTV
  Visualize whole genome alignments as linear maps
  ☆70Updated 3 months ago
• uio-cels / NucDiff
  In-depth characterization and annotation of differences between two sets of DNA sequences
  ☆60Updated 4 years ago
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆43Updated 4 years ago
• broadinstitute / StrainGE
  strain-level analysis tools
  ☆33Updated 2 months ago
• marbl / MetaCompass
  MetaCompass: Reference-guided Assembly of Metagenomes
  ☆38Updated 3 years ago
• katholt / RedDog
  ☆36Updated 2 years ago
• cerebis / bin3C
  Extract metagenome-assembled genomes (MAGs) from metagenomic data using Hi-C.
  ☆23Updated 11 months ago
• bioinfo-ut / PhenotypeSeeker
  Identify phenotype-specific k-mers and predict phenotype using sequenced bacterial strains
  ☆19Updated 2 months ago
• bacpop / mandrake
  Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding
  ☆36Updated last year
• Magdoll / MagPhase
  Phasing for metagenomics using PacBio long reads
  ☆17Updated 3 years ago
• Dmitry-Antipov / viralFlye
  viralFlye pipeline
  ☆19Updated 5 months ago
• lmrodriguezr / nonpareil
  Estimate metagenomic coverage and sequence diversity
  ☆46Updated 5 months ago
• Gaius-Augustus / Tiberius
  Tiberius is a deep learning gene finder.
  ☆44Updated this week