• McVol

  • Referenced in 2 articles [sw20199]
  • molecule or not. This method in combination with a graph-theoretical algorithm is used ... other molecular calculations. We apply this method to several proteins and demonstrate the usefulness...
  • MotifCut

  • Referenced in 5 articles [sw35400]
  • subgraphs. Results: We present MotifCut, a graph-theoretic approach to motif finding leading ... polynomial time solution. We build a graph where the vertices represent all k-mers ... represent pairwise k-mer similarity. In this graph, we search for a motif ... that it compares favorably to existing popular methods. The ability of MotifCut to detect motifs...
  • RECFMM

  • Referenced in 5 articles [sw21760]
  • scheme for parallelizing the adaptive fast multipole method (FMM) on shared-memory computers. It achieves ... systems -- CILK in particular, which provides graph-theoretic optimal scheduling in adaptation to the dynamics...
  • BrainNet Viewer

  • Referenced in 6 articles [sw26512]
  • analytic strategies, such as graph theory. These methods reveal the intriguing topological architectures of human ... huge complexity of this methodology, toolboxes for graph-based network visualization are still lacking. Here ... user interface (GUI), we developed a graph-theoretical network visualization toolbox, called BrainNet Viewer...
  • SpectralNET

  • Referenced in 3 articles [sw26161]
  • designed specifically with the analysis of graph-theoretic metrics in mind, a computational task ... real-world dataset. Whichever graph-generation method is used, SpectralNET displays detailed information about each ... connected component of the graph, including graphs of degree distribution, clustering coefficient by degree ... graph structure (Laplacian eigenvectors). CONCLUSION: SpectralNET provides an easily accessible means of analyzing graph-theoretic...
  • HydroGen

  • Referenced in 1 article [sw26156]
  • WDNs in an analysis based on graph-theoretical indices. HydroGen is used to generate ... realistic test networks on which (metaheuristic) methods for the optimisation of WDN design...
  • MathCheck

  • Referenced in 9 articles [sw13642]
  • systems and SAT solvers. We present a method and an associated system, called MathCheck, that ... universal conjectures on any mathematical topic (e.g., graph and number theory, algebra, geometry, etc.) supported ... this paper, we leverage the graph-theoretic capabilities of an open-source CAS, called SAGE...
  • GraphVar

  • Referenced in 1 article [sw26482]
  • measures as well as additional features. New Method: GraphVar 2.0 provides machine learning (ML) model ... functionalities, such as network construction and graph-theoretical analyses of brain connectivity with a high ... high quality export. Comparison with existing methods: Compared to other existing toolboxes, GraphVar 2.0 offers...
  • Matlab

  • Referenced in 11885 articles [sw00558]
  • MATLAB® is a high-level language and interactive...
  • nauty

  • Referenced in 549 articles [sw00611]
  • graph-theoretic program NAUTY: nauty is a program...
  • SageMath

  • Referenced in 1582 articles [sw00825]
  • Sage (SageMath) is free, open-source math software...
  • SINGULAR

  • Referenced in 1357 articles [sw00866]
  • SINGULAR is a Computer Algebra system (CAS) for...
  • XPPAUT

  • Referenced in 397 articles [sw05543]
  • XPPAUT is software for the analysis and simulation...
  • ANSYS-CFX

  • Referenced in 95 articles [sw06391]
  • ANSYS CFX software is a high-performance, general...
  • GRAFFITI

  • Referenced in 162 articles [sw07495]
  • On conjectures of Graffiti The above mentioned article...
  • BUGS

  • Referenced in 350 articles [sw07885]
  • The BUGS (Bayesian inference Using Gibbs Sampling) project...
  • symrcm

  • Referenced in 376 articles [sw08566]
  • symrcm: Sparse reverse Cuthill-McKee ordering. r = symrcm...
  • Ginsim

  • Referenced in 28 articles [sw09090]
  • GINsim: A software suite for the qualitative modelling...
  • Algorithm 447

  • Referenced in 136 articles [sw12877]
  • Algorithm 447: effcient algorithms for graph manipulation. Efficient...