June 2012: version 1.6.4 available from Bioconductor
CHANGES IN VERSION 1.6.4
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BUG FIXES
o Very slow transmission of large graphs to Cytoscape now much improved. The transmission time can be estimated thus:
transferTimeinSeconds = (0.002 * node.count) + (0.013 * edge.count) + (0.002 * noa.count) + (0.002 * eda.count)
CHANGES IN VERSION 1.6.0
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NEW FEATURES
o setNodeOpacityRule, controlling node fill color, border and/or label; interpolate & lookup modes both supported
o getNodeSize
o saveImage now supports pdf as well as png and svg formats
o setDefaultEdgeFontSize
o getAdjacentEdgeNames
SIGNIFICANT USER-VISIBLE CHANGES
o changed method names: layout -> layoutNetwork, version -> pluginVersion,
get/setPosition -> get/setNodePosition
o NAMESPACE now imports four more methods from the graph package, helpful
for package developers using RCytoscape: edgemode, addNode, addEdge,
requested by Robert Flight.
BUG FIXES
o Changed getNodePosition node.name.delimiter to eliminate regex token,
from ':.:' to ':-:' saveLayout now has optional 3rd parameter,
'timestamp.in.filename'
o Fixed bug in setNodeLabelDirect. Multiple nodes, one label now works.
o setCenter now casts x,y to numeric before sending out to CyRPC