Alternatives and similar repositories for nxf-kraken2:

Users that are interested in nxf-kraken2 are comparing it to the libraries listed below

• xinehc / melon
  Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
  ☆34Updated last week
• taxprofiler / taxpasta
  TAXnomic Profile Aggregation and STAndardisation
  ☆35Updated 4 months ago
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆27Updated 2 months ago
• phac-nml / refseq_masher
  Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database
  ☆41Updated 4 years ago
• drpowell / FriPan
  Interactive, web tool for exploring pan-genome of bacterial strains
  ☆45Updated 2 years ago
• andrewjpage / tiptoft
  Predict plasmids from uncorrected long read data
  ☆39Updated 5 years ago
• zjshi / Maast
  Microbial agile accurate SNP Typer
  ☆29Updated last year
• tseemann / phastaf
  Identify phage regions in bacterial genomes for masking purposes
  ☆30Updated 5 years ago
• cmmr / EsViritu
  Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data
  ☆23Updated last year
• JensUweUlrich / Taxor
  Fast and space-efficient taxonomic classification of long reads
  ☆43Updated this week
• OLC-Bioinformatics / ConFindr
  Intra-species bacterial contamination detection
  ☆25Updated 2 weeks ago
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆32Updated 2 months ago
• microbial-pangenomes-lab / microGWAS
  Bacterial GWAS analysis
  ☆36Updated this week
• tseemann / berokka
  🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
  ☆26Updated 5 years ago
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆28Updated 8 months ago
• tseemann / scripts
  Miscellaneous Perl scripts from 20 years in microbial bioinformatics
  ☆17Updated 7 months ago
• rrwick / Core-SNP-filter
  a tool to filter sites in a FASTA-format whole-genome pseudo-alignment
  ☆56Updated last month
• tseemann / seeka
  Get microbial sequence data easier and faster
  ☆28Updated 5 years ago
• rrwick / Verticall
  Recombination-free trees
  ☆57Updated last year
• bioinfo-ut / PlasmidSeeker
  A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
  ☆35Updated 4 years ago
• CFIA-NCFAD / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆19Updated last month
• Arkadiy-Garber / SprayNPray
  Rapid and simple taxonomic profiling of genome and metagenome contigs
  ☆27Updated last year
• tseemann / cgmlst-dists
  🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables
  ☆27Updated last year
• Serka-M / Digester-MultiSequencing
  Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing
  ☆21Updated 2 years ago
• bvalot / pyMLST
  whole genome MLST analysis
  ☆40Updated 9 months ago
• MrTomRod / scoary-2
  Calculate assocations between genes and traits
  ☆23Updated 4 months ago
• brinkmanlab / islandpath
  IslandPath standalone software
  ☆31Updated last year
• lmlui / Jorg
  MAG Circularization Method
  ☆33Updated 2 years ago
• pha4ge / hAMRonization_workflow
  Harmonization of AMR predictor tool outputs
  ☆23Updated last month
• chrisquince / STRONG
  Strain Resolution ON Graphs
  ☆47Updated last year