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RefineTree specifications


Unique identifier OMICS_13164
Name RefineTree
Interface Web user interface
Restrictions to use None
Output format Dynamic or PNG
Computer skills Basic
Stability Stable
Maintained Yes


  • person_outline Eric Tannier

Publication for RefineTree

RefineTree citation


Automated hierarchical classification of protein domain subfamilies based on functionally divergent residue signatures

BMC Bioinformatics
PMCID: 3599474
PMID: 22726767
DOI: 10.1186/1471-2105-13-144

[…] sets, patterns, and seed alignments,  wdigrph := rtndigraph(sqsets);//returns a weighted directed graph of set relationships,  tree := shortestpathtree(wdigrph);//as defined by tarjan[],  tree := refinetree(tree);//eliminates insignificant nodes and overlap between sets.,  fd-table := treetofdtable(tree);,  sma := createseedalignments(tree); // characteristic, cross-phyla seqs for each set., […]

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RefineTree institution(s)
Département d’Informatique (DIRO), Université de Montréal, Montréal, QC, Canada; LBBE, UMR CNRS 5558, Université de Lyon 1, Villeurbanne, France; INRIA Grenoble Rhône-Alpes, Montbonnot, France; University of Lausanne, Switzerland
RefineTree funding source(s)
This work was funded by the Agence Nationale de la Recherche, the Natural Sciences and Engineering Research Council of Canada, and the Canadian Network for Research and Innovation in Machining Technology.

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