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For each assembly function a manual and an automated solution or so called "functional module" is generated.
Using conjugate gradient method with finite element method, a program module is generated to check the hydroformed tube quality about its thickness uniformity and the geometry accuracy.
Each network module is generated using a Modular Topology Model (MTM) network model, each with a size of 25 genes.
An example of such a module is generated from interferon regulatory factor 1 (IRF-1), which is identified as one of the "divergence" hubs functionally linked to multiple downstream targets.
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A novel schematic molecular module was generated to illustrate functional modularity within networks (See Figure 5).
As in most clustering algorithms, we assume that gene expressions in different modules are generated by different distributions, while gene expressions in the same module are generated by a common (unknown) distribution.
The network for each module was generated with the minimum spanning tree with dissimilarity matrix from WGCNA.
Correlation networks of the brown module and blue module were generated in Cytoscape with adjacency thresholds of 0.42 and 0.41, respectively [ 69].
Eigenvectors representing each module were generated using the moduleEigengenes function, to obtain the first PC from the module's OTU abundance matrix.
Once the module was generated, all the nodes present in this module, including the seed node itself, were then removed from the network, and the rest of the network constituted the new background network.
For each gene, therefore, a "nearest-neighbor" co-expression module was generated by finding "neighbor" genes with correlated patterns of expression, based upon a reference set of 3,700 Affymetrix oligonucleotide arrays (see Methods).
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