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<head>
<title>Dotter - Quick Start</title>
</head>
<body>
<h1>Dotter - Quick Start</h1>
<ul>
<li><a href="release_notes.html">What's new</a></li>
<li><a href="#t_overview">Overview</a></li>
<li><a href="#t_mouse">Mouse controls</a></li>
<li><a href="#t_shortcuts">Keyboard shortcuts</a></li>
<li><a href="#t_settings">Settings</a></li>
<li><a href="#t_key">Colour key</a></li>
</ul>
<div id="t_overview">
<h2>Overview</h2>
<p>This page gives a quick-start guide to using Dotter. Other documentation is available here:</p>
<ul>
<li><a href="release_notes.html">What's new</a> (revision history)</li>
<li><a href="dotter_usage.txt">Usage</a> (command line options)</li>
<li><a href="Dotter_manual.pdf">User manual</a></li>
<li><a href="todo.html">Outstanding issues</a></li>
</ul>
</div>
<div id="t_mouse">
<h2>Mouse controls</h2>
<ul>
<li>Left button: position crosshair.</li>
<li>Middle button: drag to zoom in to a region.</li>
</ul>
</div>
<div id="t_shortcuts">
<h2>Keyboard shortcuts</h2>
<ul>
<li>Arrow keys: move crosshair one dot in arrow direction. Hold Shift to move by a single nucleotide rather than a whole amino-acid (if applicable).</li>
<li>, . : move crosshair along diagonals. Hold Shift to move by a single nucleotide, i.e. <, >.</li>
<li>[ ] : move along reverse diagonals. Hold Shift to move by a single nucleotide, i.e. {, }</li>
<li>Ctrl-Q : quit Dotter (including any child/parent Dotters)</li>
<li>Ctrl-W : close the current window (if in the Dotter window, will close the related alignment/greyramp tool as well)</li>
<li>Ctrl-P : print the Dotter window</li>
<li>Ctrl-S : settings</li>
<li>Ctrl-H : show this Help page</li>
<li>Ctrl-A : show the alignment tool</li>
<li>Ctrl-D : show the Dotter main window</li>
<li>Ctrl-G : show the greyramp tool</li>
</ul>
</div>
<div id="t_settings">
<h2>Settings</h2>
<ul>
<li>Zoom: enter a higher value to zoom out. A value of 1 means 100%, 2 means 50% etc. A fraction of 1 can be entered in order to zoom in (e.g. 0.5 for a 200% zoom), but the display will appear stretched.</li>
<li>Horizontal range: enter the min and max coords to display on the horizontal scale. Note that this will be limited to the horizontal sequence range that Dotter was started up with.</li>
<li>Vertical range: enter the min and max coords to display on the vertical scale. Note that this will be limited to the vertical sequence range that Dotter was started up with.</li>
<li>Sliding window size: affects cut-off limit for how dots are drawn</li>
<ul>
</div>
<div id="t_key">
<h2>Residue colours (alignment tool)</h2>
<ul>
<li><span style="background:cyan">Cyan</span> = Identical Residue.</li>
<li><span style="background:slateblue">Blue</span> = Positive Score.</li>
<li>No colour = Negative score.</li>
<ul>
</div>
</body>
|
