1 #ifndef HEATMAPCOMMAND_H
2 #define HEATMAPCOMMAND_H
8 * Created by Sarah Westcott on 3/25/09.
9 * Copyright 2009 Schloss Lab UMASS Amherst. All rights reserved.
14 #include "command.hpp"
15 #include "inputdata.h"
16 #include "sharedlistvector.h"
18 #include "rabundvector.hpp"
21 class HeatMapCommand : public Command {
24 HeatMapCommand(string);
28 vector<string> setParameters();
29 string getCommandName() { return "heatmap.bin"; }
30 string getCommandCategory() { return "OTU-Based Approaches"; }
31 string getHelpString();
32 string getCitation() { return "http://www.mothur.org/wiki/Heatmap.bin"; }
33 string getDescription() { return "generate a heatmap where the color represents the relative abundanceof an OTU"; }
37 void help() { m->mothurOut(getHelpString()); }
43 vector<SharedRAbundVector*> lookup;
44 vector<SharedRAbundFloatVector*> lookupFloat;
48 set<string> labels; //holds labels to be used
49 string format, groups, sorted, scale, label, outputDir, sharedfile, relabundfile, listfile, rabundfile, sabundfile, inputfile;
50 vector<string> Groups, outputNames;