Working on viz defaults, now centering all on igraph::plot

ChangeLog

@@ -1,3 +1,9 @@
+2017-09-18  George G. Vega Yon <[email protected]>
+	* R/diffnet-methods.r: Rewritten plot functions.
+	* R/misc.r: New function to set size according to degree.
+	* R/igraph.r: New set of functions and default (aesthetics).
+
+
 2017-09-15  George G. Vega Yon <[email protected]>
 	* R/diffnet-methods.r: Making the coding more neat.
 	* R/plot_diffnet2.r: Changing defaults

NAMESPACE

@@ -19,6 +19,7 @@ S3method(as_dgCMatrix,array)
 S3method(as_dgCMatrix,default)
 S3method(as_dgCMatrix,diffnet)
 S3method(as_dgCMatrix,igraph)
+S3method(as_dgCMatrix,list)
 S3method(as_dgCMatrix,network)
 S3method(as_diffnet,default)
 S3method(as_diffnet,networkDynamic)
@@ -110,6 +111,7 @@ export(graph_power)
 export(grid_distribution)
 export(hazard_rate)
 export(igraph_to_diffnet)
+export(igraph_vertex_rescale)
 export(infection)
 export(isolated)
 export(leader_matching)
@@ -165,6 +167,7 @@ export(transformGraphBy)
 export(vertex_covariate_compare)
 export(vertex_covariate_dist)
 export(vertex_mahalanobis_dist)
+export(vertex_rescale_igraph)
 export(weighted_var)
 export(wvar)
 import(methods)
@@ -183,6 +186,7 @@ importFrom(grDevices,colorRampPalette)
 importFrom(grDevices,grey)
 importFrom(grDevices,rgb)
 importFrom(graphics,.filled.contour)
+importFrom(graphics,box)
 importFrom(graphics,grid)
 importFrom(graphics,hist)
 importFrom(graphics,image)
@@ -225,7 +229,6 @@ importFrom(networkDynamic,network.collapse)
 importFrom(networkDynamic,network.extract)
 importFrom(networkDynamic,networkDynamic)
 importFrom(sna,as.sociomatrix.sna)
-importFrom(sna,gplot)
 importFrom(stats,as.formula)
 importFrom(stats,coef)
 importFrom(stats,complete.cases)

NEWS.md

@@ -5,6 +5,10 @@
 * `rdiffnet` now allows passing scalars for `threshold.dist`, more over, the user
   can also ask the function to just warn when there is no diffusion instead of
   returning with error.
+
+* `plot.diffnet`, `plot_diffnet`, `plot.diffnet_mentor`, and `plot_diffnet2` use igraph for plotting. 
+  Also, users can now pass "degree" for -vertex.size- (vertex.cex not used anymore),
+  allowing to "automatically" scale vertices by (in/out/.)degree.
 
 
 ## Bug fixes

R/adjmat.r

@@ -795,7 +795,7 @@ simmelian_mat <- function(graph, ...) {
 #' approx_geodesic(g, 6)
 #' sna::geodist(as.matrix(g))[[2]]
 #' igraph::distances(
-#'   igraph::graph_from_adjacency_matrix(g),
+#'   igraph::graph_from_adjacency_matrix(g, mode = "directed"),
 #'   mode = "out"
 #' )
 #'