Files in pmtran5884/Glycancc
Community Clustering of Anti-Carbohydrate Antibody data
DESCRIPTION
Glycancc.Rproj
LICENSE
NAMESPACE
R/analyze_graph_clusters.R
R/graph_clustering.R
R/load.R
R/misc.R
README.md
code for figures/Figure1_networks_4sp.R
code for figures/Figure2_cluster_phenotype_associations_4sp.R
code for figures/Figure2_glycanclassenrichment_4sp.R
code for figures/Figure3_aminoglycosideassociations_4sp.R
code for figures/Figure_5_predictive_models.R
data/co_cluster.rda
data/daisy.rda
data/daisy_eigenvals.rda
data/glycan_classes.rda
data/pagoda.rda
inst/extdata/1_DAISY112_phenotype data.xls
inst/extdata/1_PAGODA_minimal dataset.csv
inst/extdata/1b_NGCBgMFI_Pheno data for_IgG_DAISY.csv
inst/extdata/1b_NGCBgMFI_Pheno data for_IgG_T1D samples_20220222.csv
inst/extdata/DAISY_with_eigenvals.rds
inst/extdata/glycan_classes.csv
inst/extdata/glycan_cluster_membership.rds
man/cluster_graph.Rd
man/compare_clusters_alluvial.Rd
man/convert_to_ggplotformat.Rd
man/entropy.Rd
man/forest_plot_lm_model.Rd
man/glmnet_auc.Rd
man/glycan_class_enrichment.Rd
man/join_graphs.Rd
man/keep_earliest_samples.Rd
man/knn_network_from_umap.Rd
man/load_and_clean_DAISY_data.Rd
man/load_and_clean_PAGODA_data.Rd
man/load_glycan_classes.Rd
man/make_correlation_network.Rd
man/make_eigen_matrix.Rd
man/make_umap.Rd
man/outliers_to_na.Rd
man/plot_cluster_graph.Rd
man/plot_significant_cluster_classes.Rd
man/univariate_models.Rd
man/univariate_radar_chart.Rd
