26 lines
1.4 KiB
R
26 lines
1.4 KiB
R
library(GREMLINS) # Load the custom GREMLINS
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library(sbm)
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data(fungusTreeNetwork)
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tree_genetic_dist_matrix <- fungusTreeNetwork$covar_tree$genetic_dist
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tree_genet_sbm <- estimateSimpleSBM(netMat = tree_genetic_dist_matrix, model = "gaussian", estimOptions = list(plot = FALSE))
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plot(tree_genet_sbm)
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tree_geo_sbm <- estimateSimpleSBM(netMat = fungusTreeNetwork$covar_tree$geographic_dist, model = "gaussian", estimOptions = list(plot = FALSE))
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plot(tree_geo_sbm)
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fungus_tree_sbm <- estimateBipartiteSBM(netMat = fungusTreeNetwork$fungus_tree, model = "bernoulli", estimOptions = list(plot = FALSE))
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Tree_Geo_dist <- defineNetwork(fungusTreeNetwork$covar_tree$geographic_dist, type = "adj", "Tree", "Tree")
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Tree_Genet_dist <- defineNetwork(fungusTreeNetwork$covar_tree$genetic_dist, type = "adj", "Tree", "Tree")
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FungusTree_Count <- defineNetwork(fungusTreeNetwork$fungus_tree, type = "inc", "Fungus", "Tree")
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list_Net <- list(Tree_Geo_dist, FungusTree_Count)
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v_distrib <- c("gaussian", "bernoulli")
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namesFG <- c("Tree", "Fungus")
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givenclassif <- list(tree_geo_sbm$memberships, fungus_tree_sbm$memberships[["row"]])
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geo_multi_noinit <- multipartiteBM(list_Net = list_Net, v_distrib = v_distrib, namesFG = namesFG, givenclassif = NULL)
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geo_multi_init <- multipartiteBM(list_Net = list_Net, v_distrib = v_distrib, namesFG = namesFG, givenclassif = givenclassif)
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dataR6 <- formattingData(list_Net, v_distrib)
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