Alternatives and similar repositories for mycosnp-nf

Users that are interested in mycosnp-nf are comparing it to the libraries listed below

• epi2me-labs / wf-metagenomics
  Metagenomic classification of long-read sequencing data
  ☆99Updated last week
• EBI-Metagenomics / mobilome-annotation-pipeline
  ☆82Updated 2 weeks ago
• epi2me-labs / wf-16s
  ☆41Updated last week
• epi2me-labs / wf-bacterial-genomes
  Small variant calling for haploid samples
  ☆48Updated 3 weeks ago
• Kirk3gaard / 2025-Crowdsource-GPU-basecalling-stats
  A repository for collecting GPU basecalling stats
  ☆74Updated last month
• rrwick / Polypolish
  a short-read polishing tool for long-read assemblies
  ☆203Updated 4 months ago
• takaram / kofam_scan
  CLI tool to annotate genes with KOfam
  ☆88Updated 2 years ago
• rpetit3 / dragonflye
  Assemble bacterial isolate genomes from Nanopore reads
  ☆127Updated last year
• GaetanBenoitDev / metaMDBG
  MetaMDBG: a lightweight assembler for long and accurate metagenomics reads.
  ☆192Updated this week
• MDU-PHL / abritamr
  A pipeline for running AMRfinderPlus and collating results into functional classes
  ☆90Updated last month
• lskatz / mashtree
  Create a tree using Mash distances
  ☆181Updated 2 years ago
• genomicsITER / NanoCLUST
  NanoCLUST is an analysis pipeline for UMAP-based classification of amplicon-based full-length 16S rRNA nanopore reads
  ☆114Updated 2 years ago
• marbl / meryl
  A genomic k-mer counter (and sequence utility) with nice features.
  ☆158Updated 6 months ago
• bacpop / PopPUNK
  PopPUNK 👨‍🎤 (POPulation Partitioning Using Nucleotide Kmers)
  ☆103Updated 3 weeks ago
• CDCgov / phoenix
  🔥🐦🔥PHoeNIx: a platform agnostic pipeline for healthcare-associated and antimicrobial resistant pathogens
  ☆90Updated last week
• MaestSi / MetONTIIME
  A Meta-barcoding pipeline for analysing ONT data in QIIME2 framework
  ☆117Updated 3 weeks ago
• wdecoster / nanocomp
  Comparison of multiple long read datasets
  ☆153Updated last month
• BigDataBiology / argNorm
  ARG normalization by mapping to the ARO ontology.
  ☆62Updated 6 months ago
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆119Updated last year
• sheinasim-USDA / HiFiAdapterFilt
  Remove CCS reads with remnant PacBio adapter sequences and convert outputs to a compressed .fastq (.fastq.gz).
  ☆102Updated last year
• voorloopnul / awesome-phages
  A curated list of phage related software and computational resources for phage scientists, bioinformaticians and enthusiasts.
  ☆49Updated 3 years ago
• SionBayliss / PIRATE
  A toolbox for pangenome analysis and threshold evaluation.
  ☆99Updated 3 years ago
• Gaius-Augustus / GALBA
  GALBA is a pipeline for fully automated prediction of protein coding gene structures with AUGUSTUS in novel eukaryotic genomes for the sc…
  ☆147Updated last year
• jolespin / veba
  A modular end-to-end suite for in silico recovery, clustering, and analysis of prokaryotic, microeukaryotic, and viral genomes from metag…
  ☆99Updated last week
• wdecoster / nanostat
  Create statistic summary of an Oxford Nanopore read dataset
  ☆131Updated 3 years ago
• genomehubs / blobtoolkit
  Interactive quality assessment of genome assemblies
  ☆117Updated last month
• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆146Updated 3 weeks ago
• bvalot / pyMLST
  whole genome MLST analysis
  ☆50Updated 7 months ago
• EBI-Metagenomics / emg-viral-pipeline
  VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies
  ☆146Updated last month
• donovan-h-parks / CompareM
  A toolbox for comparative genomics.
  ☆108Updated 4 years ago