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splitCells data structure.
doDrawFrame to move
grid lines during animated transitions.
element in the range [low, high].
that.
- lcaGroup -
Static variable in class TreeJuxtaposer.TreeJuxtaposer
-
- LCAGroup -
Variable in class TreeJuxtaposer.StateFrame
-
- LCAMark -
Variable in class TreeJuxtaposer.StateFrame
-
- lcaNode -
Variable in class TreeJuxtaposer.TreeJuxtaposer
-
- leading -
Variable in class BitmapFont.BitmapFonts
-
- LeafComparator - class AccordionTreeDrawer.LeafComparator.
-
- LeafComparator() -
Constructor for class AccordionTreeDrawer.LeafComparator
-
- leafCount -
Variable in class AccordionTreeDrawer.Tree
- the number of leave nodes
- leafCount -
Variable in class TreeJuxtaposer.RangeNode
- total number of leaves decedant to this node
- LeafGridCell - class AccordionDrawer.LeafGridCell.
-
- LeafGridCell(AccordionDrawer, int, int, int, boolean) -
Constructor for class AccordionDrawer.LeafGridCell
-
- leafLca(TreeNode) -
Method in class AccordionTreeDrawer.TreeNode
- Compute the lowest common ancestor between this leaf and "that"
The two nodes must belong to the same tree and must be leaves
- leafSpace -
Variable in class AccordionTreeDrawer.Tree
-
- LEFT -
Variable in class AccordionDrawer.AccordionDrawer
-
- LEFT_MASK -
Static variable in class TreeJuxtaposer.SettingsFrame
-
- leftmostLeaf -
Variable in class AccordionTreeDrawer.TreeNode
-
- leftmostLeaf -
Variable in class AccordionTreeDrawer.Tree
-
- leftPanel -
Variable in class TreeJuxtaposer.SettingsFrame
-
- leftRight -
Variable in class AccordionDrawer.AccordionDrawer
-
- leftRight -
Variable in class TreeJuxtaposer.TreeJuxtaposer
-
- length() -
Method in class TreeJuxtaposer.Point
- the length of the p array should be 2
- lens -
Variable in class AccordionDrawer.AccordionDrawer
-
- Lens - class AccordionDrawer.Lens.
-
- Lens(GridCell[], GridCell[], int[], int[], CellGeom, AccordionDrawer) -
Constructor for class AccordionDrawer.Lens
-
- Lens(int[], int[], int[], int[], int[], AccordionDrawer) -
Constructor for class AccordionDrawer.Lens
-
- level -
Variable in class AccordionDrawer.QuadGridCell
-
- level -
Variable in class AccordionDrawer.BinaryGridCell
-
- LEXICAL_ERROR -
Static variable in class Parser.TokenMgrError
- Lexical error occured.
- LexicalError(boolean, int, int, int, String, char) -
Static method in class Parser.TokenMgrError
- Returns a detailed message for the Error when it is thrown by the
token manager to indicate a lexical error.
- lexStateNames -
Static variable in class Parser.NewickTokenManager
-
- lindex -
Variable in class AccordionTreeDrawer.TreeNode
- leaf index
- line -
Variable in class Parser.SimpleCharStream
-
- lineMove(int, GridCell, float, boolean) -
Method in class AccordionDrawer.AccordionDrawer
- Moves the splitPos of GridCell a to absolute position value in window coordinates.
- linethickness -
Variable in class AccordionDrawer.AccordionDrawer
-
- linethickness -
Variable in class TreeJuxtaposer.TreeJuxtaposer
-
- linewidth -
Variable in class AccordionDrawer.Lens
-
- linewidth -
Variable in class AccordionDrawer.InteractionBox
-
- linewidthLabel -
Static variable in class TreeJuxtaposer.SettingsFrame
-
- linewidthSlider -
Variable in class TreeJuxtaposer.SettingsFrame
-
- linkCheck -
Variable in class TreeJuxtaposer.SettingsFrame
-
- linkednav -
Variable in class AccordionDrawer.AccordionDrawer
-
- linkLeaves() -
Method in class AccordionTreeDrawer.Tree
- Links leaves of the tree in pre-order
check to see whether leaves have distinct names
if leaves have the same name, add a suffix index separated by ":"
- linkNodesInPosorder() -
Method in class AccordionTreeDrawer.Tree
- Traverses the tree in pos-order, stores the ordering in the posorderNext field of TreeNodes
- linkNodesInPreorder() -
Method in class AccordionTreeDrawer.Tree
- Traverses the tree in pre-order, stores the ordering in the preorderNext field of TreeNodes
Sets nodecount for the tree
- linkString -
Static variable in class TreeJuxtaposer.SettingsFrame
-
- linkSubtreeNodesInPosorder(TreeNode) -
Method in class AccordionTreeDrawer.Tree
- Traverses the subtree rooted at TreeNode n in post-order, stores the
ordering in the posorderNext field of TreeNodes.
- linkSubtreeNodesInPreorder(TreeNode) -
Method in class AccordionTreeDrawer.Tree
- Traverses the subtree rooted at TreeNode n in pre-order, stores the
ordering in the preorderNext field of TreeNodes.
- LL -
Variable in class TreeJuxtaposer.ButterflyFrame
-
- load_nexus(String, int) -
Method in class AccordionTreeDrawer.Tree
- Reads a tree with giving index in a file fname with Nexus format
and initiates the Tree object.
- load(String) -
Method in class AccordionTreeDrawer.Tree
- Reads a tree in file fname described in Newick format
and initiate the tree object.
- loadImages() -
Method in class TreeJuxtaposer.ButterflyFrame
-
- loadNewickTree(String) -
Method in class TreeJuxtaposer.TreeJuxtaposer
-
- loadNexusTree(String, Vector) -
Method in class TreeJuxtaposer.TreeJuxtaposer
-
- lookingAhead -
Static variable in class Parser.Newick
-
- LOOP_DETECTED -
Static variable in class Parser.TokenMgrError
- Detected (and bailed out of) an infinite loop in the token manager.
- lSum -
Variable in class TreeJuxtaposer.Tree2Tree.TmpD
-
l.
splitCells[][]
that has cells in sorted order in X and Y.
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