Integration of Disease Similarity Methods


[Up] [Top]

Documentation for package ‘dSimer’ version 1.8.0

Help Pages

dSimer-package Integration of Disease Similarity Methods
BOG calculate disease similarity by BOG
CosineDFV calculate disease similarity by using feature vectors
d2go_sample d2go_sample
d2g_fundo_entrezid d2g_fundo_entrezid
d2g_fundo_symbol d2g_fundo_symbol
d2g_separation d2g_separation
d2s_hsdn d2s_hsdn
d2s_hsdn_sample d2s_hsdn_sample
dSimer Integration of Disease Similarity Methods
FunSim calculate disease similarity by FunSim
get_GOterm2GeneAssos get GO-gene associations
go2g_sample go2g_sample
graphlet_sig_hprd graphlet_sig_hprd
HumanNet_sample HumanNet_sample
HypergeometricTest Hypergeometric test and multiple testing
ICod calculate disease similarity by ICod
InformationContent calculating information content
interactome interactome
jaccardindex calculating Jaccard Index
LLSn2List convert data.frame of HumanNet log-likelihood Score to list
Normalize normalize data
orbit_dependency_count orbit_dependency_count
plot_bipartite plot disease-gene (or GO term etc.) associations as a bipartite graph
plot_heatmap similarity matrix heatmap plotting
plot_net plot a network based on a symmetric disease similarity matrix
plot_topo plot topological relationship of two gene sets
PPI_HPRD PPI_HPRD
PSB calculate disease similarity by PSB
Separation calculating network-based separation of disease pairs
Separation2Similarity a method which convert separation to similarity
setWeight set weight factor
Sun_annotation Sun's annotation measure of disease similarity calculating
Sun_function Sun's function measure of disease similarity calculating
Sun_topology Sun's topology measure of disease similarity calculating
weight weight
x2y_conv2_y2x convert x2ylist to y2xlist
x2y_df2list convert x-y associations