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Stochasticity and small system size effects in complex biochemical reaction networks can greatly alter transient and steady-state system properties. A common approach to modeling reaction networks, which accounts for system size, is the chemical master equation that governs the dynamics of the joint probability distribution for molecular copy number. However, calculation of the stationary distribution...
In this paper, we present an implementation of the block power method based on Spark, the big data processing framework, to approximate the dominant eigenvalues and eigenvectors of a large, sparse matrix in distributed computing environment. To take advantage of graph-parallel computation in Spark, we employ the property graph with specially defined vertex and edge types to represent the sparse matrix...
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