Searched refs:CSparseKmerCounts (Results 1 – 6 of 6) sorted by relevance
103 CSparseKmerCounts::SetUseCompressed(false); in BOOST_AUTO_TEST_CASE()108 CSparseKmerCounts counts, counts2; in BOOST_AUTO_TEST_CASE()142 CSparseKmerCounts::SetAlphabetSize(20); in BOOST_AUTO_TEST_CASE()145 CSparseKmerCounts::SetKmerLength(i); in BOOST_AUTO_TEST_CASE()157 CSparseKmerCounts::SetKmerLength(4); in BOOST_AUTO_TEST_CASE()163 CSparseKmerCounts::SetAlphabetSize(5); in BOOST_AUTO_TEST_CASE()169 CSparseKmerCounts::SetUseCompressed(true); in BOOST_AUTO_TEST_CASE()179 CSparseKmerCounts::SetUseCompressed(true); in BOOST_AUTO_TEST_CASE()180 CSparseKmerCounts::SetAlphabetSize(2); in BOOST_AUTO_TEST_CASE()181 CSparseKmerCounts::SetKmerLength(4); in BOOST_AUTO_TEST_CASE()[all …]
54 unsigned int CSparseKmerCounts::sm_KmerLength = 4;56 vector<Uint1> CSparseKmerCounts::sm_TransTable;57 bool CSparseKmerCounts::sm_UseCompressed = false;58 CSparseKmerCounts::TCount* CSparseKmerCounts::sm_Buffer = NULL;59 bool CSparseKmerCounts::sm_ForceSmallerMem = false;69 CSparseKmerCounts::CSparseKmerCounts(const objects::CSeq_loc& seq, in CSparseKmerCounts() function in CSparseKmerCounts121 CSparseKmerCounts::TCount* CSparseKmerCounts::ReserveCountsMem( in ReserveCountsMem()366 double CSparseKmerCounts::FractionCommonKmersDist( in FractionCommonKmersDist()406 unsigned int CSparseKmerCounts::CountCommonKmers( in CountCommonKmers()454 void CSparseKmerCounts::PreCount(void) in PreCount()[all …]
60 class NCBI_COBALT_EXPORT CSparseKmerCounts class86 CSparseKmerCounts(void) : m_SeqLength(0), m_NumCounts(0) {} in CSparseKmerCounts() function in CSparseKmerCounts93 CSparseKmerCounts(const objects::CSeq_loc& seq,116 {return CSparseKmerCounts::sm_KmerLength;} in GetKmerLength()173 static double FractionCommonKmersDist(const CSparseKmerCounts& vect1, 174 const CSparseKmerCounts& vect2);189 static double FractionCommonKmersGlobalDist(const CSparseKmerCounts& v1,190 const CSparseKmerCounts& v2);198 static unsigned int CountCommonKmers(const CSparseKmerCounts& v1, 199 const CSparseKmerCounts& v2,
99 typedef TKmerMethods<CSparseKmerCounts> TKMethods;
114 typedef CSparseKmerCounts TKmerCounts;
219 typedef CSparseKmerCounts TKmerCounts; in x_RunSparse()