vector<string> setParameters();
string getCommandName() { return "otu.association"; }
string getCommandCategory() { return "Hypothesis Testing"; }
- string getOutputFileNameTag(string, string);
+
string getHelpString();
+ string getOutputPattern(string);
string getCitation() { return "http://www.mothur.org/wiki/Otu.association"; }
string getDescription() { return "calculate the correlation coefficient for the otus in a shared/relabund file"; }
string sharedfile, relabundfile, metadatafile, groups, label, inputFileName, outputDir, method;
bool abort, pickedGroups, allLines;
+ double cutoff;
set<string> labels;
vector<SharedRAbundFloatVector*> metadataLookup;
vector< vector< double> > metadata;