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  "Description": "Implementation of the bootstrapping approach for the\nestimation of clustering stability and its application in\nestimating the number of clusters, as introduced by Yu et al\n(2016)<doi:10.1142/9789814749411_0007>. Implementation of the\nnon-parametric bootstrap approach to assessing the stability of\nmodule detection in a graph, the extension for the selection of\na parameter set that defines a graph from data in a way that\noptimizes stability and the corresponding visualization\nfunctions, as introduced by Tian et al (2021)\n<doi:10.1002/sam.11495>. Implemented out-of-bag stability\nestimation function and k-select Smin-based k-selection\nfunction as introduced by Liu et al (2022)\n<doi:10.1002/sam.11593>. Implemented ensemble clustering method\nbased-on k-means clustering method, spectral clustering method\nand hierarchical clustering method.",
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