Alternatives and similar repositories for floria

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

• AfZheng126 / MORA

  View on GitHub
  MetagenOmic read Re-Assigner and abundance quantifier
  ☆20Jan 31, 2025Updated last year
• bluenote-1577 / devider

  View on GitHub
  Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs
  ☆41Sep 29, 2025Updated 4 months ago
• bluenote-1577 / sylph

  View on GitHub
  ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.
  ☆290Feb 3, 2026Updated last week
• rvicedomini / strainberry

  View on GitHub
  Automated strain separation of low-complexity metagenomes
  ☆52Nov 10, 2021Updated 4 years ago
• raufs / skDER

  View on GitHub
  skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.
  ☆54Sep 7, 2025Updated 5 months ago
• COMBINE-lab / mim

  View on GitHub
  A small, auxiliary index to massively improve parallel fastq parsing
  ☆30Updated this week
• katerinakazantseva / strainy

  View on GitHub
  Graph-based assembly phasing
  ☆91Nov 25, 2025Updated 2 months ago
• bluenote-1577 / skani

  View on GitHub
  Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.
  ☆235Oct 12, 2025Updated 4 months ago
• bacpop / ska.rust

  View on GitHub
  Split k-mer analysis – version 2
  ☆104Jan 29, 2026Updated 2 weeks ago
• pg-space / panspace

  View on GitHub
  Embedding-based indexing for compact storage and rapid querying of bacterial pan-genomes
  ☆21Dec 9, 2025Updated 2 months ago
• iqbal-lab-org / pandora

  View on GitHub
  Pan-genome inference and genotyping with long noisy or short accurate reads
  ☆119Dec 13, 2024Updated last year
• LuoGroup2023 / PanTax

  View on GitHub
  PanTax: Strain-level metagenomic profiling using pangenome graphs
  ☆46Jan 27, 2026Updated 2 weeks ago
• AllTheBacteria / Phylign

  View on GitHub
  Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…
  ☆12May 22, 2024Updated last year
• bluenote-1577 / fairy

  View on GitHub
  alignment-free coverage calculation for metagenomic binning >100 times faster
  ☆48Mar 13, 2025Updated 11 months ago
• JMencius / LongBow

  View on GitHub
  Basecalling configuration prediction through FASTQ files
  ☆32Nov 24, 2025Updated 2 months ago
• AllTheBacteria / AllTheBacteria

  View on GitHub
  Follow up to Grace Blackwell's 661k dataset, for 2023
  ☆130Updated this week
• shenwei356 / LexicMap

  View on GitHub
  LexicMap: efficient sequence alignment against millions of prokaryotic genomes
  ☆209Updated this week
• gcgreenberg / LexicHash

  View on GitHub
  A novel method for sequence similarity estimation
  ☆28Mar 23, 2024Updated last year
• GaetanBenoitDev / metaMDBG

  View on GitHub
  MetaMDBG: a lightweight assembler for long and accurate metagenomics reads.
  ☆199Feb 2, 2026Updated 2 weeks ago
• unipept / umgap

  View on GitHub
  A taxonomic classifier for shotgun metagenomics reads
  ☆11Apr 4, 2025Updated 10 months ago
• taxprofiler / taxpasta

  View on GitHub
  TAXnomic Profile Aggregation and STAndardisation
  ☆41Nov 18, 2025Updated 2 months ago
• esteinig / sketchy

  View on GitHub
  Genomic neighbor typing of bacterial pathogens using MinHash
  ☆42Jan 10, 2023Updated 3 years ago
• shenwei356 / kmcp

  View on GitHub
  Accurate metagenomic profiling && Fast large-scale sequence/genome searching
  ☆205Sep 22, 2023Updated 2 years ago
• ksahlin / strobealign

  View on GitHub
  Aligns short reads using dynamic seed size with strobemers
  ☆192Feb 8, 2026Updated last week
• RolandFaure / Hairsplitter

  View on GitHub
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆35Apr 23, 2025Updated 9 months ago
• rust-seq / simd-minimizers

  View on GitHub
  A SIMD-accelerated library to compute random minimizers
  ☆36Updated this week
• refresh-bio / clusty

  View on GitHub
  ☆14Jan 28, 2026Updated 2 weeks ago
• jonas-fuchs / virHEAT

  View on GitHub
  Visualize microbial evolution at the SNP level!
  ☆15Aug 12, 2025Updated 6 months ago
• rrwick / Autocycler

  View on GitHub
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆216Feb 4, 2026Updated last week
• mbhall88 / rasusa

  View on GitHub
  Randomly subsample sequencing reads or alignments
  ☆254Feb 9, 2026Updated last week
• HaploKit / vechat

  View on GitHub
  Correcting errors in noisy long reads using variation graphs
  ☆50Nov 17, 2022Updated 3 years ago
• bacpop / ggCaller

  View on GitHub
  Bifrost graph gene caller.
  ☆98Jan 20, 2026Updated 3 weeks ago
• shenwei356 / ncbi_acc2gtdb_acc

  View on GitHub
  Mapping NCBI Genbank accession to GTDB accession
  ☆14Feb 13, 2021Updated 5 years ago
• gbouras13 / dnaapler

  View on GitHub
  Reorients assembled microbial sequences
  ☆132Aug 21, 2025Updated 5 months ago
• ChaissonLab / hmcnc

  View on GitHub
  Hidden Markov Model based Copy number caller
  ☆20Dec 9, 2025Updated 2 months ago
• waveygang / wfmash

  View on GitHub
  base-accurate DNA sequence alignments using WFA and mashmap3
  ☆210Jan 30, 2026Updated 2 weeks ago
• althonos / pyskani

  View on GitHub
  PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
  ☆29Aug 20, 2025Updated 5 months ago
• bacpop / mandrake

  View on GitHub
  Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding
  ☆39Mar 7, 2025Updated 11 months ago
• pha4ge / hAMRonization

  View on GitHub
  Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure
  ☆173Nov 27, 2025Updated 2 months ago