Alternatives and similar repositories for STing

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

• kevsilva / StrainFLAIR
  Strain-level abundances estimation in metagenomic samples using variation graphs
  ☆25Updated 2 years ago
• CFIA-NCFAD / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆23Updated 3 months ago
• tseemann / seeka
  Get microbial sequence data easier and faster
  ☆28Updated 5 years ago
• farhat-lab / fast-lineage-caller
  ☆14Updated 4 years ago
• GlobalPathogenAnalysisService / read-it-and-keep
  Read contamination removal
  ☆25Updated last year
• bacpop / mandrake
  Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding
  ☆38Updated 4 months ago
• FredHutch / octapus
  Bacterial Operon Finder for Functional Organization
  ☆15Updated last year
• pirovc / grimer
  GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…
  ☆23Updated 2 years ago
• thackl / proovframe
  frame-shift correction for long-read (meta)genomics
  ☆34Updated last year
• phac-nml / neptune
  Neptune: Genomic Signature Discovery
  ☆20Updated 7 months ago
• mbhall88 / tbpore
  Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data
  ☆11Updated last year
• katholt / AMRrules
  Organism-specific interpretation of AMR genotypes
  ☆13Updated last year
• OLC-Bioinformatics / ConFindr
  Intra-species bacterial contamination detection
  ☆25Updated 5 months ago
• angelovangel / nxf-kraken2
  A simple nextflow pipeline for running kraken2 and bracken in a docker container
  ☆20Updated 4 years ago
• iqbal-lab-org / varifier
  Variant call verification
  ☆16Updated 2 months ago
• phiweger / uv
  Finding prophage regions in bacterial genomes using brute force
  ☆22Updated 2 years ago
• phac-nml / refseq_masher
  Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database
  ☆42Updated 4 years ago
• rpetit3 / fastq-scan
  Output FASTQ summary statistics in JSON format
  ☆30Updated 2 years ago
• KThorellGroup / BACTpipe
  BACTpipe: An assembly and annotation pipeline for bacterial genomics
  ☆20Updated 7 months ago
• sanger-pathogens / seroba
  k-mer based Pipeline to identify the Serotype from Illumina NGS reads
  ☆24Updated 2 years ago
• tseemann / berokka
  🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
  ☆26Updated 5 years ago
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆21Updated 5 months ago
• maxemil / PhyloMagnet
  screening metagenomes for arbitrary lineages, using gene-centric assembly methods and phylogenetics
  ☆11Updated 4 years ago
• stjacqrm / centroid
  tool to determine optimal refrerence genome given a set of fasta files
  ☆15Updated 2 years ago
• drpowell / FriPan
  Interactive, web tool for exploring pan-genome of bacterial strains
  ☆46Updated 2 years ago
• npavlovikj / ProkEvo
  ProkEvo - an automated, reproducible, and scalable framework for high-throughput bacterial population genomics analyses.
  ☆18Updated 3 years ago
• lmc297 / BTyper3
  In silico taxonomic classification of Bacillus cereus group genomes using whole-genome sequencing data
  ☆19Updated last year
• theiagen / public_health_bacterial_genomics
  ☆26Updated last year
• BeatsonLab-MicrobialGenomics / micropipe
  A pipeline for high-quality bacterial genome construction using ONT sequencing
  ☆39Updated 2 years ago
• lmlui / Jorg
  MAG Circularization Method
  ☆33Updated 3 years ago