LocalAli

LocalAli is a fast and scalable local network alignment tool for identifying functionally conserved modules in multiple networks. It uses a maximum-parsimony evolutionary model to reconstruct the evolution history of conserved modules, making it easier to interpret the resulting local alignments. LocalAli outperforms existing algorithms in terms of coverage, consistency, scalability, and precision, according to tests on 26 real datasets and 1040 randomly generated datasets.

Topic

Systems biology;Molecular interactions, pathways and networks

Detail

  • Operation: Alignment

  • Software interface: Command-line user interface

  • Language: C++

  • License: -

  • Cost: Free

  • Version name: -

  • Credit: China Scholarship Council.

  • Input: -

  • Output: -

  • Contact: jialu.hu@fu-berlin.de

  • Collection: -

  • Maturity: -

Publications

  • LocalAli: an evolutionary-based local alignment approach to identify functionally conserved modules in multiple networks.
  • Hu J and Reinert K. LocalAli: an evolutionary-based local alignment approach to identify functionally conserved modules in multiple networks. LocalAli: an evolutionary-based local alignment approach to identify functionally conserved modules in multiple networks. 2015; 31:363-72. doi: 10.1093/bioinformatics/btu652
  • https://doi.org/10.1093/bioinformatics/btu652
  • PMID: 25282642
  • PMC: -

Download and documentation

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