<!DOCTYPE HTML PUBLIC "-//IETF//DTD HTML//EN">
<HTML>
<HEAD>
<meta name="GENERATOR" content="Microsoft&reg; HTML Help Workshop 4.1">
<!-- Sitemap 1.0 -->
</HEAD><BODY>
<OBJECT type="text/site properties">
	<param name="Auto Generated" value="Yes">
</OBJECT>
<UL>
	<LI> <OBJECT type="text/sitemap">
		<param name="Name" value="Introduction/Overview">
		<param name="Local" value="Intro.htm">
		</OBJECT>
	<UL>
		<LI> <OBJECT type="text/sitemap">
			<param name="Name" value="Program Goals">
			<param name="Local" value="Intro.htm">
			</OBJECT>
	</UL>
	<LI> <OBJECT type="text/sitemap">
		<param name="Name" value="Using RDPharm3D">
		<param name="Local" value="Using.htm">
		</OBJECT>
	<UL>
		<LI> <OBJECT type="text/sitemap">
			<param name="Name" value="Getting Started">
			<param name="Local" value="GettingStarted.htm">
			</OBJECT>
		<LI> <OBJECT type="text/sitemap">
			<param name="Name" value="Adding Molecules">
			<param name="Local" value="AddingMolecules.htm">
			</OBJECT>
		<LI> <OBJECT type="text/sitemap">
			<param name="Name" value="Exploring Hits">
			<param name="Local" value="ExploringHits.htm">
			</OBJECT>
		<LI> <OBJECT type="text/sitemap">
			<param name="Name" value="Editing Molecules">
			<param name="Local" value="EditingMolecules.htm">
			</OBJECT>
		<LI> <OBJECT type="text/sitemap">
			<param name="Name" value="Changing the View">
			<param name="Local" value="ViewOptions.htm">
			</OBJECT>
		<LI> <OBJECT type="text/sitemap">
			<param name="Name" value="Adding Points to the Pharmacophore">
			<param name="Local" value="AddingPoints.htm">
			</OBJECT>
		<UL>
			<LI> <OBJECT type="text/sitemap">
				<param name="Name" value="Selecting Atoms">
				<param name="Local" value="AddingPoints.htm">
				</OBJECT>
			<LI> <OBJECT type="text/sitemap">
				<param name="Name" value="Assigning Feature Types">
				<param name="Local" value="AddingPoints.htm">
				</OBJECT>
			<LI> <OBJECT type="text/sitemap">
				<param name="Name" value="Defining Distances">
				<param name="Local" value="AddingPoints.htm">
				</OBJECT>
			<LI> <OBJECT type="text/sitemap">
				<param name="Name" value="Exploring Changes">
				<param name="Local" value="AddingPoints.htm">
				</OBJECT>
		</UL>
		<LI> <OBJECT type="text/sitemap">
			<param name="Name" value="Saving Your Work">
			<param name="Local" value="SavingResults.htm">
			</OBJECT>
		<UL>
			<LI> <OBJECT type="text/sitemap">
				<param name="Name" value="Saving Everything">
				<param name="Local" value="SavingResults.htm">
				</OBJECT>
			<LI> <OBJECT type="text/sitemap">
				<param name="Name" value="Exporting All Molecules">
				<param name="Local" value="SavingResults.htm">
				</OBJECT>
			<LI> <OBJECT type="text/sitemap">
				<param name="Name" value="Exporting Alignments">
				<param name="Local" value="SavingResults.htm">
				</OBJECT>
		</UL>
	</UL>
	<LI> <OBJECT type="text/sitemap">
		<param name="Name" value="Methodology">
		<param name="Local" value="MethodOverview.htm">
		</OBJECT>
	<UL>
		<LI> <OBJECT type="text/sitemap">
			<param name="Name" value="Introduction">
			<param name="Local" value="MethodOverview.htm">
			</OBJECT>
		<LI> <OBJECT type="text/sitemap">
			<param name="Name" value="Building the Bounds Matrix">
			<param name="Local" value="BuildingBoundsMatrix.htm">
			</OBJECT>
		<LI> <OBJECT type="text/sitemap">
			<param name="Name" value="Finding Mappings">
			<param name="Local" value="FindingMappings.htm">
			</OBJECT>
		<LI> <OBJECT type="text/sitemap">
			<param name="Name" value="Matching Pharmacophores">
			<param name="Local" value="MatchingPharmacophores.htm">
			</OBJECT>
		<LI> <OBJECT type="text/sitemap">
			<param name="Name" value="Generating Structures">
			<param name="Local" value="GeneratingStructures.htm">
			</OBJECT>
		<LI> <OBJECT type="text/sitemap">
			<param name="Name" value="Scoring Alignments">
			<param name="Local" value="ScoringAlignments.htm">
			</OBJECT>
	</UL>
	<LI> <OBJECT type="text/sitemap">
		<param name="Name" value="References">
		<param name="Local" value="References.htm">
		</OBJECT>
</UL>
</BODY></HTML>
