Uses of Class
gata.aligner.Alignment

Packages that use Alignment

gata.main	Main app, utility, and params for GATAPlotter.
gata.plotter	GATAPlotter primary panel, sliders, tools, and conservation panels.

Uses of Alignment in gata.main

Methods in gata.main that return Alignment

static Alignment[]

GATAUtil.makeSubAligns(LocalAlignment[] locs)

Uses of Alignment in gata.plotter

Methods in gata.plotter that return Alignment

Alignment[]	AlignPanel.getVisableAlignments()
Alignment[]	AlignPanel.getAlignments()

Methods in gata.plotter with parameters of type Alignment

static void

AlignPanel.createShapes(Alignment[] alignments, double refX, double refY, double compX, double compY, double ntLenBig, double C, double D)