FlowerPower

FlowerPower is a clustering algorithm designed to identify global homologs as a precursor to structural phylogenomic analysis. The algorithm employs an iterative approach to clustering sequences using subfamily hidden Markov models. FlowerPower is shown to outperform BLAST, PSI-BLAST and the UCSC SAM-Target 2K methods at discrimination between proteins in the same domain architecture class and those having different overall domain structures.

Topic

Sequence analysis;Phylogenetics;Proteins;Phylogeny

Detail

  • Operation: Sequence clustering

  • Software interface: Command-line user interface

  • Language: Python

  • License: -

  • Cost: Free

  • Version name: -

  • Credit: Presidential Early Career Award for Scientists and Engineers (PECASE) from the National Science Foundation, the National Institutes of Health.

  • Input: -

  • Output: -

  • Contact: Nandini Krishnamurthy nandinik@berkeley.edu, Duncan Brown duncanb@dnai.com, Kimmen Sjölander kimmen@berkeley.edu

  • Collection: -

  • Maturity: -

Publications

  • FlowerPower: clustering proteins into domain architecture classes for phylogenomic inference of protein function.
  • Krishnamurthy N, et al. FlowerPower: clustering proteins into domain architecture classes for phylogenomic inference of protein function. FlowerPower: clustering proteins into domain architecture classes for phylogenomic inference of protein function. 2007; 7 Suppl 1:S12. doi: 10.1186/1471-2148-7-S1-S12
  • https://doi.org/10.1186/1471-2148-7-S1-S12
  • PMID: 17288570
  • PMC: PMC1796606

Download and documentation

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