Alternatives and similar repositories for MMseqs

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

• Benjamin-Lee / CodonAdaptationIndex
  Python Implementation of Codon Adaption Index
  ☆37Updated 2 years ago
• guyleonard / get_jgi_genomes
  A quick and easy way to download the genomes/predicted proteins of taxa available in JGI's Genome Portal.
  ☆37Updated 2 weeks ago
• althonos / pyfamsa
  Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.
  ☆31Updated last week
• dincarnato / RNAFramework
  RNA structure probing and post-transcriptional modifications mapping high-throughput data analysis
  ☆39Updated this week
• AnimaTardeb / G4Hunter
  G4Hunter (2012_2015)- IECB - Bordeaux
  ☆14Updated 5 years ago
• iquasere / UPIMAPI
  UniProt Id Mapping through API
  ☆34Updated 8 months ago
• soedinglab / kClust
  kClust is a fast and sensitive clustering method for the clustering of protein sequences. It is able to cluster large protein databases d…
  ☆18Updated 6 years ago
• harmslab / topiary
  Python framework for doing ancestral sequence reconstruction
  ☆38Updated 11 months ago
• santiago1234 / iCodon
  iCodon customizes gene expression based on the codon composition
  ☆15Updated last year
• barricklab / ostir
  Software for predicting translation initiation rates in bacteria
  ☆26Updated 7 months ago
• jbloomlab / dms_tools2
  software for the analysis and visualization of deep mutational scanning data
  ☆34Updated 2 years ago
• moshi4 / pyMSAviz
  MSA(Multiple Sequence Alignment) visualization python package for sequence analysis
  ☆133Updated 6 months ago
• rcedgar / reseek
  Protein structure alignment and search algorithm
  ☆62Updated this week
• EnzoAndree / HmmPy
  A Pure-Python parser of HMMER3 output
  ☆17Updated 8 months ago
• mariodosreis / tai
  The tRNA adaptation index
  ☆18Updated 2 months ago
• nmatzke / 3diphy
  Maximum likelihood structural phylogenetics by including Foldseek 3Di characters. Supporting Information for Puente-Lelievre et al. 2023n…
  ☆21Updated last month
• HobnobMancer / cazy_webscraper
  Web scraper to retrieve protein data catalogued by the CAZy, UniProt, NCBI, GTDB and PDB websites/databases.
  ☆14Updated 5 months ago
• steineggerlab / unicore
  Universal and efficient core gene phylogeny with Foldseek and ProstT5
  ☆67Updated this week
• soedinglab / spacedust
  Discovery of conserved gene clusters in multiple genomes
  ☆81Updated last month
• salzberg-lab / Balrog
  Bacterial Annotation by Learned Representation of Genes
  ☆55Updated 4 years ago
• bioforensics / pytaxonkit
  Python bindings for the TaxonKit library
  ☆41Updated last month
• fteufel / signalp-6.0
  Multi-class signal peptide prediction and structure decoding model.
  ☆87Updated 4 months ago
• VivianMonzon / Reciprocal_Best_Structure_Hits
  ☆11Updated 2 years ago
• EddyRivasLab / infernal
  RNA secondary structure/sequence profiles for homology search and alignment
  ☆110Updated 7 months ago
• MiguelMSandin / SSNetworks
  A brief, quick and dirty introduction to Sequence Similarity Networks
  ☆21Updated 2 years ago
• r2dt-bio / R2DT
  Visualise RNA secondary structure in consistent, reproducible and recognisable layouts
  ☆73Updated 2 weeks ago
• WrightLabScience / EvoWeaver-ExampleCode
  Associated code for EvoWeaver publication
  ☆15Updated last month
• Merck / bgc-pipeline
  ☆11Updated 6 months ago
• urmi-21 / orfipy
  Fast and flexible ORF finder
  ☆71Updated 3 years ago
• allie-walker / Natural-product-function
  scripts for predicting natural product activity from biosynthetic gene cluster sequences
  ☆23Updated 3 weeks ago