Alternatives and similar repositories for taxopy

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

• apcamargo / ictv-mmseqs2-protein-database

  View on GitHub
  ☆34Oct 6, 2025Updated 4 months ago
• bioforensics / pytaxonkit

  View on GitHub
  Python bindings for the TaxonKit library
  ☆43Feb 2, 2026Updated last week
• apcamargo / pycoverm

  View on GitHub
  Simple Python interface to CoverM's fast coverage estimation functions
  ☆10Dec 20, 2024Updated last year
• snayfach / UHGV

  View on GitHub
  Unified Human Gut Virome Catalog
  ☆41Nov 10, 2025Updated 3 months ago
• althonos / pyrodigal

  View on GitHub
  Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!
  ☆176Jan 7, 2026Updated last month
• apcamargo / pydustmasker

  View on GitHub
  Python library for identification and masking of low-complexity regions in nucleotide sequences
  ☆10Jan 23, 2026Updated 3 weeks 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
• shenwei356 / taxonkit

  View on GitHub
  A Practical and Efficient NCBI Taxonomy Toolkit, also supports creating NCBI-style taxdump files for custom taxonomies like GTDB/ICTV
  ☆456Jan 5, 2026Updated last month
• Yasas1994 / Jaeger

  View on GitHub
  Jaeger is a quick and precise tool for detecting phages in sequence assemblies.
  ☆35Jan 22, 2026Updated 3 weeks ago
• refresh-bio / PHIST

  View on GitHub
  Phage-Host Interaction Search Tool
  ☆29Jul 8, 2024Updated last year
• rhysnewell / rosella

  View on GitHub
  Metagenomic Binning Algorithm
  ☆51Jan 16, 2026Updated 3 weeks ago
• wwood / CoverM

  View on GitHub
  Read alignment statistics for metagenomics
  ☆387Jan 16, 2026Updated 3 weeks ago
• KatyBrown / plot_phylo

  View on GitHub
  Python package to plot a phylogenetic tree on an existing matplotlib axis.
  ☆27Jul 21, 2025Updated 6 months ago
• yosuken / ViPTreeGen

  View on GitHub
  a command line tool for viral proteomic tree generation, part of the ViPTree project: http://www.genome.jp/viptree
  ☆34Sep 20, 2022Updated 3 years ago
• apcamargo / genomad

  View on GitHub
  geNomad: Identification of mobile genetic elements
  ☆286Nov 10, 2025Updated 3 months ago
• miwipe / ngsLCA

  View on GitHub
  ☆14Jun 26, 2025Updated 7 months ago
• oxli-bio / oxli

  View on GitHub
  k-mers and the like
  ☆22Updated this week
• RasmussenLab / phamb

  View on GitHub
  Downstream processing of VAMB binning for Viral Elucidation
  ☆54Jul 3, 2024Updated last year
• mdmparis / defense-finder

  View on GitHub
  Systematic search of all known anti-phage systems.
  ☆144Jan 22, 2026Updated 3 weeks ago
• ablab / viralVerify

  View on GitHub
  viralVerify: viral contig verification tool
  ☆74Aug 22, 2021Updated 4 years ago
• padlocbio / padloc

  View on GitHub
  Locate antiviral defence systems in prokaryotic genomes
  ☆67Oct 22, 2024Updated last year
• EvolBioInf / fur

  View on GitHub
  Find Unique genomic Regions
  ☆32Jan 26, 2026Updated 2 weeks ago
• apcamargo / prodigal-gv

  View on GitHub
  A fork of Prodigal meant to improve gene calling for giant viruses and viruses that use alternative genetic codes
  ☆49Oct 12, 2023Updated 2 years ago
• apcamargo / polars-pairing

  View on GitHub
  Plugin that provides pairing functions to the Polars library
  ☆14Feb 14, 2025Updated 11 months ago
• KatyBrown / CIAlign

  View on GitHub
  ☆133Aug 29, 2024Updated last year
• Benjamin-Lee / vdsearch

  View on GitHub
  Viroid-like circRNA discovery and analysis suite
  ☆18Nov 11, 2023Updated 2 years ago
• Niknafs / NGSTools

  View on GitHub
  NGSTools
  ☆16Mar 3, 2017Updated 8 years ago
• MGXlab / CAT_pack

  View on GitHub
  CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…
  ☆224Jan 20, 2026Updated 3 weeks ago
• cropgeeks / tablet

  View on GitHub
  Tablet is a lightweight, high-performance graphical viewer for next generation sequence assemblies and alignments.
  ☆42Jun 14, 2023Updated 2 years ago
• Pweidemueller / fullRankMatrix

  View on GitHub
  It discovers linear dependent columns and then replaces linear dependent columns with linearly independent columns that span the space o…
  ☆15Jul 4, 2024Updated last year
• iBiology / iTOL

  View on GitHub
  A Python API and a command-line tool for the Tree of Life
  ☆17Aug 28, 2020Updated 5 years ago
• metagenlab / mummer2circos

  View on GitHub
  Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments
  ☆108Dec 11, 2023Updated 2 years ago
• thackl / proovframe

  View on GitHub
  frame-shift correction for long-read (meta)genomics
  ☆33Dec 11, 2023Updated 2 years ago
• noamteyssier / gia

  View on GitHub
  gia: Genomic Interval Arithmetic
  ☆66Aug 21, 2024Updated last year
• rcedgar / urmap

  View on GitHub
  URMAP ultra-fast read mapper
  ☆38Jun 15, 2020Updated 5 years ago
• CristinaMoraru / VIRIDIC

  View on GitHub
  VIRIDIC (Virus Intergenomic Distance Calculator) computes pairwise intergenomic distances/similarities amongst viral genomes.
  ☆18Oct 19, 2023Updated 2 years ago
• pirovc / multitax

  View on GitHub
  A Python package for obtaining, parsing and exploring biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)
  ☆47Feb 5, 2026Updated last week
• soedinglab / spacepharer

  View on GitHub
  SpacePHARER CRISPR Spacer Phage-Host pAiRs findER
  ☆44May 8, 2024Updated last year
• jolespin / pykofamsearch

  View on GitHub
  Fast implementation of KofamScan optimized for high-memory systems using PyHMMER
  ☆17Jan 13, 2026Updated last month