int readMap(string);
int getNumGroups();
int getNumSeqs();
- void setIndex(string, int); //sequencename, index
- int getIndex(string); //returns vector index of sequence
+ //void setIndex(string, int); //sequencename, index
+ //int getIndex(string); //returns vector index of sequence
bool isValidGroup(string); //return true if string is a valid group
void removeSeq(string); //removes a sequence, this is to accomadate trees that do not contain all the seqs in your groupfile
string getGroup(string);