Alternatives and similar repositories for MIRA

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

• jonas-fuchs / SARS-CoV-2-analyses
  Collection of R scripts for SARS-CoV-2 (variant) analyses
  ☆12Updated 2 years ago
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆64Updated last week
• drpowell / FriPan
  Interactive, web tool for exploring pan-genome of bacterial strains
  ☆48Updated 2 years ago
• bacpop / CELEBRIMBOR
  Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs
  ☆25Updated last year
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆41Updated last week
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆33Updated 10 months ago
• CFIA-NCFAD / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆23Updated last month
• flass / pantagruel
  a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome
  ☆50Updated 3 years ago
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆30Updated last year
• lmlui / Jorg
  MAG Circularization Method
  ☆32Updated 3 years ago
• klebgenomics / Kaptive
  ☆55Updated this week
• tseemann / scripts
  Miscellaneous Perl scripts from 20 years in microbial bioinformatics
  ☆17Updated last year
• CCB-SB / plsdb
  PLSDB pipeline to collect bacterial plasmids from NCBI
  ☆38Updated last year
• cmmr / EsViritu
  Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data
  ☆42Updated 3 weeks ago
• microbial-pangenomes-lab / microGWAS
  Bacterial GWAS analysis
  ☆45Updated last week
• qiyunlab / binarena
  BinaRena: Interactive Visualization and Binning of Metagenomic Contigs
  ☆32Updated last year
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆40Updated last month
• MrTomRod / scoary-2
  Calculate assocations between genes and traits
  ☆28Updated 7 months ago
• drboothtj / getphylo
  a python package for automated generation of phylogenetic trees from genbank files
  ☆23Updated 7 months ago
• BeatsonLab-MicrobialGenomics / micropipe
  A pipeline for high-quality bacterial genome construction using ONT sequencing
  ☆39Updated 3 years ago
• OLC-Bioinformatics / ConFindr
  Intra-species bacterial contamination detection
  ☆25Updated 8 months ago
• andrewjpage / tiptoft
  Predict plasmids from uncorrected long read data
  ☆41Updated this week
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆72Updated 2 months ago
• SWittouck / SCARAP
  A toolkit for prokaryotic comparative genomics
  ☆51Updated 2 weeks ago
• flu-crew / TreeSort
  Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.
  ☆18Updated last month
• Arkadiy-Garber / SprayNPray
  Rapid and simple taxonomic profiling of genome and metagenome contigs
  ☆29Updated 2 years ago
• santeripuranen / SpydrPick
  SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.
  ☆13Updated 3 years ago
• phac-nml / refseq_masher
  Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database
  ☆42Updated 4 years ago
• peterk87 / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆30Updated last month
• lskatz / fundamentals-of-bioinformatics
  ☆27Updated 5 months ago