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treeClass::treeClass-
treeClass::printTrees-
treeClass::findElementsInTree - returns the indices of nodes in current tree
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treeClass::removeTree - moves the nodes in the (this) connected component to replacementTree connected component.
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nodeClass::addNodeLink - adds a link, increments the owning protein's numLinks by 1
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nodeClass::removeAllLinks - removes all edges going out of this node, resets its edge parameters accordingly
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nodeClass::markAllNodesInTheTree - nodeColor of visited nodes becomes 1.
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nodeClass::printTree - prints the index of every node in the same tree as (this)
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nodeClass::removeConnectionTo - removes link from (this) to (toNode).
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connected - returns true if n1 is connected to n2
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findNeighbors - returns neighbors of node # startNode
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findNumNeighbors - returns num neighbors of node # i
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findNeighborsAndTransitionProbabilities - finds and returns both node indices that the input node is connected to, as well as the edge weights
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removeLinkBetweenAndUpdateTrees - removes link between node n1 and n2.
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findBiggestCC - returns the pointer to the largest connected component, if there are multiple such connected components returns NULL
Alphabetic index
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