.Assign_Layout_Matrix |
Hidden function for assigning layout matrix |
.Gen_R |
.Gen_R - internal methods for generating Rnets. |
.Gen_R-method |
.Gen_R - internal methods for generating Rnets. |
Assign_Emetadata |
Assign_Emetadata - Methods for assigning network edge metadata |
Assign_Emetadata-method |
Assign_Emetadata - Methods for assigning network edge metadata |
Assign_Vmetadata |
Assign_Vmetadata - Methods for assigning network vertex metadata |
Assign_Vmetadata-method |
Assign_Vmetadata - Methods for assigning network vertex metadata |
Clean_Sigma |
Clean_Sigma function |
EC_COORDS |
Example Vertex coordinates |
Estimate_pCorrs |
Estimation of partial correlation matrix from precision matrix |
E_ATTRS |
Sample Edge Attributes |
image |
image() method for plotting Rnet heatmaps |
image.edge_heatmap |
image() method for plotting Rnet heatmaps |
L1Selection |
L1 Selection for Rnets |
NARMS_EC_DATA |
E. coli Isolate information from Nat'l Antimicrobial Resistance Monitoring System. |
plot |
Plot methods for R-nets |
plot-method |
Plot methods for R-nets |
print-method |
Print methods of rnet objects. |
Rnet |
R-net Methods |
Rnet-method |
R-net Methods |
rnet.L1.set |
An S4 class for accepting input data common for generating all rnet objects. These objects are used to handle rnet objects and need not be called by the user. |
rnet.L1.set-class |
An S4 class for accepting input data common for generating all rnet objects. These objects are used to handle rnet objects and need not be called by the user. |
rnetBasic |
An S4 class containg the information of a basic rnet. These objects are used to handle rnet objects and need not be called by the user. |
rnetBasic-class |
An S4 class containg the information of a basic rnet. These objects are used to handle rnet objects and need not be called by the user. |
rnetInput |
An S4 class for accepting input data common for generating all rnet objects. These objects are used to handle rnet objects and need not be called by the user. |
rnetInput-class |
An S4 class for accepting input data common for generating all rnet objects. These objects are used to handle rnet objects and need not be called by the user. |
rnetStrata |
An S4 class containing multiple Rnets, each the information of an rnet representing one stratum of data. These objects are used to handle rnet objects and need not be called by the user. |
rnetStrata-class |
An S4 class containing multiple Rnets, each the information of an rnet representing one stratum of data. These objects are used to handle rnet objects and need not be called by the user. |
rnetSubset |
An S4 class containing the information of an rnet representing one stratum of data. These objects are used to handle rnet objects and need not be called by the user. |
rnetSubset-class |
An S4 class containing the information of an rnet representing one stratum of data. These objects are used to handle rnet objects and need not be called by the user. |
Rnet_Heatmap |
Rnet_Heatmap - Function to generate a bitmap figure to represent edges in similar networks over time. |
signed_modularity |
Robust Estimator of modularity (Gomez, et al 2009) |
signed_modularity-method |
signed_modularity-igraph |
signed_modularity-method |
signed_modularity-matrix |
signed_modularity-method |
signed_modularity-rnetBasic |
signed_modularity-method |
signed_modularity-rnetMultiStrata |
Sq2Long |
Matrix reshaping function |
summary |
Summary - rnetBasic |
summary-method |
Summary - L1 selection object |
summary-method |
Summary - rnetBasic |
summary-method |
Summary - rnetStrata |
summary-method |
Summary - rnetSubset |
V_ATTRS |
Sample Vertex Attributes for NARMS_EC_DATA |