CDCgov / MIRA

Related projects ⓘ

Alternatives and complementary repositories for MIRA

• appliedbinf / pima
  Plasmid and antimicrobial resistance pipeline
  ☆16Updated last year
• pha4ge / hAMRonization_workflow
  Harmonization of AMR predictor tool outputs
  ☆21Updated last year
• pha4ge / pha4ge.github.io
  Static website for the PH4AGE alliance
  ☆13Updated last year
• CDCgov / tostadas
  🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission
  ☆27Updated this week
• UPHL-BioNGS / Grandeur
  UPHL's Reference Free Pipeline
  ☆25Updated this week
• CDCgov / seqsender
  Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories
  ☆32Updated this week
• CFSAN-Biostatistics / C-WAP
  SC2 variant detection and composition pipeline
  ☆16Updated last year
• andrewjpage / tiptoft
  Predict plasmids from uncorrected long read data
  ☆39Updated 4 years ago
• kullrich / snpless-nf
  snpless-nf - A Nextflow pipeline for time-course analysis with bacterial NGS whole-genome data.
  ☆14Updated 5 months ago
• interpretAMR / AMRrules
  Interpretative standards for AMR genotypes
  ☆14Updated 3 months ago
• flass / pantagruel
  a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome
  ☆46Updated 2 years ago
• tseemann / scripts
  Miscellaneous Perl scripts from 20 years in microbial bioinformatics
  ☆16Updated 3 months ago
• tseemann / cgmlst-dists
  🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables
  ☆26Updated last year
• Arcadia-Science / sourmashconsumr
  Working with the outputs of sourmash in R
  ☆25Updated last year
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆26Updated 4 months ago
• USDA-VS / GenoFLU
  Influenza data pipeline to automate genotyping assignment
  ☆20Updated last week
• jonas-fuchs / SARS-CoV-2-analyses
  Collection of R scripts for SARS-CoV-2 (variant) analyses
  ☆12Updated last year
• phac-nml / rebar
  REcombination BARcode detector.
  ☆13Updated 7 months ago
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆29Updated 3 weeks ago
• peterk87 / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆22Updated last week
• MrTomRod / scoary-2
  Calculate assocations between genes and traits
  ☆19Updated 2 weeks ago
• microbial-pangenomes-lab / microGWAS
  Bacterial GWAS analysis
  ☆31Updated last month
• klebgenomics / Kaptive
  ☆43Updated this week
• stjacqrm / centroid
  tool to determine optimal refrerence genome given a set of fasta files
  ☆14Updated last year
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆29Updated last month
• drpowell / FriPan
  Interactive, web tool for exploring pan-genome of bacterial strains
  ☆44Updated last year
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆57Updated last week
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆49Updated last week