BioSequence Member List

This is the complete list of members for BioSequence, including all inherited members.

BioSequence()	BioSequence
BioSequence(const string &filename)	BioSequence
BioSequence(const string &seqnam, const string &seq)	BioSequence
checkSequence()	BioSequence
find(const string &words)	BioSequence
findPattern(const string &pat)	BioSequence
getDeletedSequence(const long &, const long &)	BioSequence
getInsertedSequence(const long &, const string &)	BioSequence
getMutatedSequence(const long &, const char &)	BioSequence
getMutatedSequence(const long &, const string &)	BioSequence
getMutatedSequence(const char &, const char &)	BioSequence
getMutatedSequence(const string &, const string &)	BioSequence
getMutatedSequence(const long &, const long &, const string &)	BioSequence
getMutatedSequence(string &s1)	BioSequence
getNumberOfOccurrences(const char &ch)	BioSequence
getNumberOfOccurrences(const string &pattern)	BioSequence
getNumberOfSSRs(const string &pat, const int &repeats)	BioSequence
getPositionsOfPattern(const string &pat)	BioSequence
getPositionsOfSSRs(const string &pat, const int &repeats)	BioSequence
getSequence() const	BioSequence
getSequenceLength() const	BioSequence
getSequenceName() const	BioSequence
getSequenceSegment(const long &a, const long &b)	BioSequence
getShuffledSequence()	BioSequence
operator<(const BioSequence &, const BioSequence &)	BioSequence	[friend]
operator==(const BioSequence &, const BioSequence &)	BioSequence	[friend]
operator>(const BioSequence &, const BioSequence &)	BioSequence	[friend]
readFasta(ifstream &)	BioSequence
seqname_	BioSequence	[protected]
sequence_	BioSequence	[protected]
setSequence(const string &seqnam, const string &seq)	BioSequence
setSequence(const string &seq)	BioSequence
setSequenceName(const string &seqnam)	BioSequence
showInFasta(ostream &=cout)	BioSequence
showPositionsOfPattern(const string &pat, ostream &os=cout)	BioSequence
showPositionsOfPattern(const string &pat, BioPostScript &ps, const int &xpos=100, const int &ypos=650, const int &w=450, const int &h=20)	BioSequence
showShuffledSequence(ostream &os=cout)	BioSequence
showSSRs(const string &pat, const int &repeats, ostream &os=cout)	BioSequence
showSSRs(const string &pat, const int &repeats, BioPostScript &ps, const int &xpos=100, const int &ypos=650, const int &w=450, const int &h=20)	BioSequence