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Searched refs:l_mer_begin (Results 1 – 5 of 5) sorted by relevance

/dports/biology/seqan1/seqan-1.3.1/seqan/find_motif/
H A Dfind_motif_pms1.h631 TIterString l_mer_begin, in createDVariants() argument
652 _buildVariants(hash_val_of_variants, l_mer_begin, d, *bitsets_iter, shape); in createDVariants()
668 _buildVariants(hash_val_of_variants, l_mer_begin, i, *bitsets_iter, shape); in createDVariants()
757 TStringIter l_mer_begin, in _buildVariants() argument
772 l_mer[i] = *l_mer_begin; in _buildVariants()
773 ++l_mer_begin; in _buildVariants()
H A Dfind_motif_projection.h1100 _computeLikelihoodRatioOfLMer(TStrIter l_mer_begin, in _computeLikelihoodRatioOfLMer() argument
1107 unsigned int l = (unsigned int)(l_mer_end-l_mer_begin); in _computeLikelihoodRatioOfLMer()
1117 while(l_mer_begin!=l_mer_end) in _computeLikelihoodRatioOfLMer()
1119 motif_component += log_profile[l-(l_mer_end-l_mer_begin)+1][(int)*l_mer_begin]; in _computeLikelihoodRatioOfLMer()
1120 backgr_component += log_profile[0][(int)*l_mer_begin]; in _computeLikelihoodRatioOfLMer()
1121 ++l_mer_begin; in _computeLikelihoodRatioOfLMer()
H A Dfind_motif_generated_forwards.h170 …, typename TSpec> void _buildVariants(TIntVect & variants, TStringIter l_mer_begin, TType const & …
187 …Iter, typename TProfile> double _computeLikelihoodRatioOfLMer(TStrIter l_mer_begin, TStrIter l_mer…
313 …typename TShape> void createDVariants(TIntVect & variants, TIterString l_mer_begin, TType const & …
382 … TStringIter, typename TType> bool hasAtLeastOneOccurrence(TStringIter l_mer_begin, TStringIter se…
387 template <typename TStringIter, typename TType> bool hasExactOneOccurrence(TStringIter l_mer_begin,…
H A Dfind_motif_epatternbranching.h733 hasAtLeastOneOccurrence(TStringIter l_mer_begin, in hasAtLeastOneOccurrence() argument
748 counter += (hammingDistance<TType>(seq_begin, seq_begin+l, l_mer_begin)==d) ? 1 : 0; in hasAtLeastOneOccurrence()
752 counter += (hammingDistance<TType>(seq_begin, seq_begin+l, l_mer_begin)<=d) ? 1 : 0; in hasAtLeastOneOccurrence()
H A Dfind_motif_pmsp.h757 hasExactOneOccurrence(TStringIter l_mer_begin, in hasExactOneOccurrence() argument
772 counter += (hammingDistance<TType>(seq_begin, seq_begin+l, l_mer_begin)==d) ? 1 : 0; in hasExactOneOccurrence()
776 counter += (hammingDistance<TType>(seq_begin, seq_begin+l, l_mer_begin)<=d) ? 1 : 0; in hasExactOneOccurrence()