diff --git a/code/analysis/investigating/impact_of_vem_max_steps.R b/code/analysis/investigating/impact_of_vem_max_steps.R index 0cc1d23..50f9529 100644 --- a/code/analysis/investigating/impact_of_vem_max_steps.R +++ b/code/analysis/investigating/impact_of_vem_max_steps.R @@ -129,7 +129,7 @@ results <- parallel::mclapply(seq_len(nrow(conditions)), function(idx) { elapsed_time <- stop_time - start_time - unlisted_best_partition <- extract_best_bipartite_partition(clust) + unlisted_best_partition <- extract_best_partition(clust) if (!is.list(unlisted_best_partition)) { unlisted_best_partition <- list(unlisted_best_partition) diff --git a/code/analysis/investigating/profiling_clustering.R b/code/analysis/investigating/profiling_clustering.R index 1ebbb79..34ae374 100644 --- a/code/analysis/investigating/profiling_clustering.R +++ b/code/analysis/investigating/profiling_clustering.R @@ -121,7 +121,7 @@ results <- parallel::mclapply(seq_len(nrow(conditions)), function(idx) { elapsed_time <- stop_time - start_time - unlisted_best_partition <- extract_best_bipartite_partition(clust) + unlisted_best_partition <- extract_best_partition(clust) if (!is.list(unlisted_best_partition)) { unlisted_best_partition <- list(unlisted_best_partition) diff --git a/code/applications/base_analysis.qmd b/code/applications/base_analysis.qmd index 2014212..b33f61b 100644 --- a/code/applications/base_analysis.qmd +++ b/code/applications/base_analysis.qmd @@ -16,7 +16,7 @@ library(latex2exp) ``` ```{r} list_collection <- readRDS("{{clustering}}") -unlisted_best_partition <- unlist(extract_best_bipartite_partition(list_collection)) +unlisted_best_partition <- unlist( extract_best_partition(list_collection)) BICL <- sum(sapply(unlisted_best_partition, function(col) col$BICL)) ``` diff --git a/code/applications/dore/02_dore_analysis.qmd b/code/applications/dore/02_dore_analysis.qmd index 56f08fb..8515dd1 100644 --- a/code/applications/dore/02_dore_analysis.qmd +++ b/code/applications/dore/02_dore_analysis.qmd @@ -40,7 +40,7 @@ Les clustering donne le critère suivant : vec_bicl <- sapply(list_clustering, function(clustering) { list_collection <- readRDS(clustering) unlisted_best_partition <- unlist( - extract_best_bipartite_partition(list_collection) + extract_best_partition(list_collection) ) BICL <- sum(sapply(unlisted_best_partition, function(col) col$BICL)) BICL diff --git a/code/applications/dore_no_small/02_dore_no_small_analysis.qmd b/code/applications/dore_no_small/02_dore_no_small_analysis.qmd index 0e89c77..1b006a3 100644 --- a/code/applications/dore_no_small/02_dore_no_small_analysis.qmd +++ b/code/applications/dore_no_small/02_dore_no_small_analysis.qmd @@ -121,7 +121,7 @@ Les clustering donne le critère suivant : vec_bicl <- sapply(list_clustering, function(clustering) { list_collection <- readRDS(clustering) unlisted_best_partition <- unlist( - extract_best_bipartite_partition(list_collection) + extract_best_partition(list_collection) ) BICL <- sum(sapply(unlisted_best_partition, function(col) col$BICL)) BICL diff --git a/code/applications/herbivores/03_herbivores_analysis.qmd b/code/applications/herbivores/03_herbivores_analysis.qmd index 76c81c4..a3da28e 100644 --- a/code/applications/herbivores/03_herbivores_analysis.qmd +++ b/code/applications/herbivores/03_herbivores_analysis.qmd @@ -31,7 +31,7 @@ Les clustering donne le critère suivant : vec_bicl <- sapply(list_clustering, function(clustering) { list_collection <- readRDS(clustering) unlisted_best_partition <- unlist( - extract_best_bipartite_partition(list_collection) + extract_best_partition(list_collection) ) BICL <- sum(sapply(unlisted_best_partition, function(col) col$BICL)) BICL diff --git a/code/applications/utils.R b/code/applications/utils.R index effb1ba..0f9c701 100644 --- a/code/applications/utils.R +++ b/code/applications/utils.R @@ -50,7 +50,7 @@ build_graph_size_dataframe <- function(collection_list) { } extract_clustering <- function(clustering) { - partition <- colSBM::extract_best_bipartite_partition( + partition <- colSBM::extract_best_partition( l = clustering, unnest = TRUE ) diff --git a/code/simulations/clustering/02_synthetic_clustering_analysis.qmd b/code/simulations/clustering/02_synthetic_clustering_analysis.qmd index ff34cd3..ddffb81 100644 --- a/code/simulations/clustering/02_synthetic_clustering_analysis.qmd +++ b/code/simulations/clustering/02_synthetic_clustering_analysis.qmd @@ -41,7 +41,7 @@ Les clustering donne le critère suivant : vec_bicl <- sapply(list_clustering, function(clustering) { list_collection <- readRDS(clustering) unlisted_best_partition <- unlist( - extract_best_bipartite_partition(list_collection) + extract_best_partition(list_collection) ) BICL <- sum(sapply(unlisted_best_partition, function(col) col$BICL)) BICL diff --git a/code/simulations/simulations_network_clustering.R b/code/simulations/simulations_network_clustering.R index 12b297c..8ffe0fc 100644 --- a/code/simulations/simulations_network_clustering.R +++ b/code/simulations/simulations_network_clustering.R @@ -198,7 +198,7 @@ results <- bettermc::mclapply(seq_len(nrow(conditions)), function(s) { silent_parallelization = TRUE ) - best_partitions <- unlist(extract_best_bipartite_partition(list_collection)) + best_partitions <- unlist( extract_best_partition(list_collection)) if (!is(best_partitions, "list")) { best_partitions <- list(best_partitions) }