This is the complete list of members for
mmdb::math::Alignment1, including all inherited members.
| AdjustEnds(ivector S, ivector T, int J, int I) | mmdb::math::Alignment1 | [protected] |
| AlgnLen | mmdb::math::Alignment1 | [protected] |
| AlgnS | mmdb::math::Alignment1 | [protected] |
| AlgnT | mmdb::math::Alignment1 | [protected] |
| Align(ivector S, int SLength, ivector T, int TLength, ALIGN_METHOD Method=ALIGN_GLOBAL) | mmdb::math::Alignment1 | |
| AlignKey | mmdb::math::Alignment1 | [protected] |
| Alignment1() | mmdb::math::Alignment1 | |
| Alignment1(io::RPStream Object) | mmdb::math::Alignment1 | |
| Backtrace(ivector S, ivector T, int J, int I, bool StopAtZero) | mmdb::math::Alignment1 | [protected] |
| BuildGATable(ivector S, ivector T, bool FreeSEnds, bool FreeTEnds) | mmdb::math::Alignment1 | [protected] |
| BuildLATable(ivector S, ivector T) | mmdb::math::Alignment1 | [protected] |
| ET | mmdb::math::Alignment1 | [protected] |
| FreeMemory() | mmdb::math::Alignment1 | [protected, virtual] |
| FT | mmdb::math::Alignment1 | [protected] |
| GetAlignedS() | mmdb::math::Alignment1 | [inline] |
| GetAlignedT() | mmdb::math::Alignment1 | [inline] |
| GetAlignLength() | mmdb::math::Alignment1 | [inline] |
| GetScore() | mmdb::math::Alignment1 | [inline] |
| GetSimilarity() | mmdb::math::Alignment1 | |
| InitAlignment1() | mmdb::math::Alignment1 | [protected, virtual] |
| OutputResults(io::RFile f, ivector S, int lenS, ivector T, int lenT) | mmdb::math::Alignment1 | [virtual] |
| PrintVT(ivector S, ivector T) | mmdb::math::Alignment1 | [protected] |
| read(io::RFile f) | mmdb::math::Alignment1 | |
| mmdb::io::Stream::read(RFile) | mmdb::io::Stream | [inline, virtual] |
| Score(int A, int B) | mmdb::math::Alignment1 | [protected, virtual] |
| SEq | mmdb::math::Alignment1 | [protected] |
| SetAffineModel(realtype WGap, realtype WSpace) | mmdb::math::Alignment1 | |
| SetScores(realtype SEqual, realtype SNEqual) | mmdb::math::Alignment1 | |
| SLen | mmdb::math::Alignment1 | [protected] |
| SNEq | mmdb::math::Alignment1 | [protected] |
| Space | mmdb::math::Alignment1 | [protected] |
| Stream() | mmdb::io::Stream | [inline] |
| Stream(RPStream) | mmdb::io::Stream | [inline] |
| TLen | mmdb::math::Alignment1 | [protected] |
| VAchieved | mmdb::math::Alignment1 | [protected] |
| VT | mmdb::math::Alignment1 | [protected] |
| Wg | mmdb::math::Alignment1 | [protected] |
| write(io::RFile f) | mmdb::math::Alignment1 | |
| mmdb::io::Stream::write(RFile) | mmdb::io::Stream | [inline, virtual] |
| Ws | mmdb::math::Alignment1 | [protected] |
| ~Alignment1() | mmdb::math::Alignment1 | |
| ~Stream() | mmdb::io::Stream | [inline, virtual] |
1.7.2
