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SPIKE user’s manual
For additional filtering options see the Filtering section below.
When expanding these regulations, additional nodes appear. They are placed on top of
each other, and can be manually dragged to new locations. Another option for placing them
is to use the auto-layout mode. Selecting the auto-layout mode by pressing the auto-layout
button (
) will place all the nodes on the canvas so that it would be clearer to view all the
regulations.
Nodes can be pinned down (
) so that they will not change location even in auto-
layout mode. To pin a node down, right-click the mouse on that node, and select "Pin down"
from the pop-up menu. To pin down multiple nodes, select them all and press the "Pin
selected nodes" button (
) placed at the tool bar.
The blue edges that appear represent the various interactions and regulations between the
entities. SPIKE presents four types of regulatory relations:
Activation regulation
Inhibition regulation
Unknown regulation
Protein-protein interaction (un-directed edge).
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