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RazorBack::Gapseq_ Member List
This is the complete list of members for RazorBack::Gapseq_, including all inherited members.
- annot() const
[inline]
- annot()
[inline]
- annot(const string &A)
[inline]
- ANNOTERR enum value
[protected]
- ANYFORMAT enum value
[protected]
- at_1(size_t Idx) const
[virtual]
- at_1(size_t Idx, char C)
[virtual]
- at_3(size_t Idx) const
[virtual]
- at_3(size_t Idx, const char *Ccc)
[virtual]
- autodetect_type(const string &S)
[protected, static]
- Bioseq_(Monomer_::Type_ Mt=Monomer_::PROT)
[inline, explicit]
- Bioseq_(const char *Codes)
[inline, explicit]
- Bioseq_(const Bioseq_ &B)
[inline]
- Bioseqio_()
[inline, protected]
- Bioseqio_(const Bioseqio_ &B)
[inline, protected]
- buffer()
[inline, protected]
- buffer(size_t Idx)
[inline, protected]
- BuildCRCTable(unsigned int CRCTable[256])
[protected, static]
- chg_monomer()
[inline, protected]
- clean_seq(string &S, int Type, bool Nocase, bool GapsOK=false) const
[protected]
- compare_basecount(const string &S, const int Acgtx[5], bool Isdna)
[protected, static]
- count_bases(const string &S, int Acgtx[5], bool Isdna)
[protected, static]
- crc_32(const string &buffer)
[protected, static]
- current_datestr()
[protected, static]
- EMBL enum value
[protected]
- error_str(Errtype_ Err)
[protected, static]
- Errtype_ enum name
[protected]
- FASTA enum value
[protected]
- fetch_buffer(istream &Inf)
[protected]
- FILEERR enum value
[protected]
- format_str(Formatflags_ F)
[protected, static]
- FORMATERR enum value
[protected]
- Formatflags_ enum name
[protected]
- GAP
[static]
- GAP3
[static]
- Gaplen
[private]
- Gaplist
[private]
- gapped_sequence(bool Gcg=false) const
- gapped_sequence(const string &Gseq, int Mtype=Monomer_::UNKNOWN)
- Gapseq_(Monomer_::Type_ Mt=Monomer_::PROT)
[inline, explicit]
- Gapseq_(const char *Codes)
[inline, explicit]
- Gapseq_(const Bioseq_ &B)
[inline]
- Gapseq_(const Gapseq_ &G)
[inline]
- GCG enum value
[protected]
- gcg_checksum(const string &S)
[protected, static]
- GCG_ENDGAP
[static]
- GCG_ENDGAP3
[static]
- GCG_GAP
[static]
- GCG_GAP3
[static]
- gross_length() const
[inline]
- gross_pos(size_t Net) const
- id() const
[inline]
- id()
[inline]
- id(const string &I)
[inline]
- IDERR enum value
[protected]
- insert_gaps(size_t Idx, size_t N)
- is_legal(char C) const
[inline, virtual]
- is_legal(const char *Ccc) const
[inline, virtual]
- is_legal(const string &S) const
[inline]
- is_legal(int Mt, char C) const
[protected, virtual]
- length() const
[inline]
- lowercase()
- make_buffer()
[inline, protected]
- mol_weight(const string &S)
[protected, static]
- monomer() const
[inline]
- net_length() const
[inline]
- net_pos(size_t Gross) const
- nocase() const
[inline]
- nocase(bool N)
[inline]
- OK enum value
[protected]
- operator=(const Bioseqio_ &B)
[inline, protected]
- operator[](size_t Idx) const
[inline]
- operator[](size_t Idx)
[inline]
- PIR enum value
[protected]
- read_embl(istream &Inf, string &Id, string &Annot, string &Seq, int &Embllen, int Acgtx[5])
[protected]
- read_fasta(istream &Inf, string &Id, string &Title, string &Seq)
[protected]
- read_gcg(istream &Inf, string &Id, string &Annot, string &Seq, int &Gcglen, int &Gcgcheck, char &Typechar)
[protected]
- read_pir(istream &Inf, string &Id, string &Title, string &Annot, string &Seq)
[protected]
- read_seq(istream &Inf, int Type=Monomer_::USER, int Format=ANYFORMAT)
[virtual]
- read_swiss(istream &Inf, string &Id, string &Annot, string &Seq, int &Swlen, int &Mw, unsigned int &Crc32)
[protected]
- remove_gaps(size_t Idx)
- remove_gaps()
[inline]
- seq() const
[inline]
- seq(const string &S)
[inline, virtual]
- SEQERR enum value
[protected]
- sequence()
[inline, protected]
- SWISS enum value
[protected]
- title() const
[inline]
- title()
[inline]
- title(const string &T)
[inline]
- TITLEERR enum value
[protected]
- TYPEERR enum value
[protected]
- UNKNOWN enum value
[protected]
- uppercase()
- write_embl(ostream &Outf, const string &ID, const string &Title, const string &Annot, const string &Seq, Monomer_::Type_ Type)
[protected, static]
- write_fasta(ostream &Outf, const string &ID, const string &Title, const string &Seq)
[protected, static]
- write_gcg(ostream &Outf, const string &ID, const string &Title, const string &Annot, const string &Seq, Monomer_::Type_ Type)
[protected, static]
- write_pir(ostream &Outf, const string &ID, const string &Title, const string &Annot, const string &Seq)
[protected, static]
- write_seq(ostream &Outf, int Format) const
[virtual]
- write_swiss(ostream &Outf, const string &ID, const string &Title, const string &Annot, const string &Seq)
[protected, static]
- ~Bioseqio_()
[inline, protected, virtual]
Generated at Wed Aug 21 09:33:45 2002 for The Razorback C++ Library: Bioinformatics by
1.2.6 written by Dimitri van Heesch,
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