| /dports/math/mlpack/mlpack-3.4.2/src/mlpack/methods/hmm/ |
| H A D | hmm_regression_impl.hpp | 47 arma::mat& forwardProb, in Estimate() argument
53 return this->HMM::Estimate(dataSeq, stateProb, forwardProb, in Estimate()
104 arma::mat forwardProb; in Filter() local
106 Forward(predictors, responses, scales, forwardProb); in Filter()
111 forwardProb = pow(transition, ahead)*forwardProb; in Filter()
112 forwardProb = forwardProb.cols(0, forwardProb.n_cols-ahead-1); in Filter()
122 filterSeq = filterSeq + nextSeq%(forwardProb.row(i).t()); in Filter()
154 arma::mat& forwardProb) const in Forward()
158 this->HMM::Forward(dataSeq, scales, forwardProb); in Forward()
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| H A D | hmm_regression.hpp | 204 arma::mat& forwardProb,
308 arma::mat& forwardProb) const;
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| H A D | hmm_impl.hpp | 359 arma::mat& forwardProb, in Estimate() argument
372 forwardProb = exp(forwardLogProb); in Estimate()
542 arma::mat forwardProb = exp(forwardLogProb); in Filter() local
548 filterSeq += emission[i].Mean() * forwardProb.row(i); in Filter()
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| H A D | hmm.hpp | 238 arma::mat& forwardProb,
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| /dports/biology/seqan-apps/seqan-seqan-v2.4.0/apps/razers/ |
| H A D | readSimulator.h | 70 double forwardProb) in fillupStartpos() argument
89 if ((double)rand() / TEMP_RAND_MAX >= forwardProb) in fillupStartpos()
136 double forwardProb,
217 …artpos(sortedStartPos, numReads, readLength, maxErrors, libSize, libError, seqLength, forwardProb);
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| /dports/biology/seqan-apps/seqan-seqan-v2.4.0/apps/razers3/ |
| H A D | readSimulator.h | 68 double forwardProb) in fillupStartpos() argument
87 if ((double)rand() / TEMP_RAND_MAX >= forwardProb) in fillupStartpos()
132 double forwardProb,
214 …artpos(sortedStartPos, numReads, readLength, maxErrors, libSize, libError, seqLength, forwardProb);
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| /dports/biology/seqan1/seqan-1.3.1/apps/razers/ |
| H A D | readSimulator.h | 70 double forwardProb) in fillupStartpos() argument
89 if ((double)rand() / TEMP_RAND_MAX >= forwardProb) in fillupStartpos()
136 double forwardProb,
217 …artpos(sortedStartPos, numReads, readLength, maxErrors, libSize, libError, seqLength, forwardProb);
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| /dports/biology/seqan1/seqan-1.3.1/apps/razers2/ |
| H A D | readSimulator.h | 70 double forwardProb) in fillupStartpos() argument
89 if ((double)rand() / TEMP_RAND_MAX >= forwardProb) in fillupStartpos()
136 double forwardProb,
217 …artpos(sortedStartPos, numReads, readLength, maxErrors, libSize, libError, seqLength, forwardProb);
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| /dports/biology/seqan1/seqan-1.3.1/apps/splazers/ |
| H A D | readSimulator.h | 70 double forwardProb) in fillupStartpos() argument
89 if ((double)rand() / TEMP_RAND_MAX >= forwardProb) in fillupStartpos()
136 double forwardProb,
217 …artpos(sortedStartPos, numReads, readLength, maxErrors, libSize, libError, seqLength, forwardProb);
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| /dports/biology/seqan-apps/seqan-seqan-v2.4.0/apps/splazers/ |
| H A D | readSimulator.h | 73 double forwardProb) in fillupStartpos() argument
93 if (dist(rng) >= forwardProb) in fillupStartpos()
139 double forwardProb,
218 …s(rng, sortedStartPos, numReads, readLength, maxErrors, libSize, libError, seqLength, forwardProb);
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| /dports/biology/mmseqs2/MMseqs2-13-45111/src/commons/ |
| H A D | tantan.cpp | 251 void addEndCounts(double forwardProb, in addEndCounts()
254 double toEnd = forwardProb * b2b / totalProb; in addEndCounts()
258 void addTransitionCounts(double forwardProb, in addTransitionCounts()
261 double toBg = forwardProb * b2b / totalProb; in addTransitionCounts()
262 double toFg = forwardProb * b2fFirst / totalProb; in addTransitionCounts()
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| /dports/biology/clustal-omega/clustal-omega-1.2.4/src/hhalign/ |
| H A D | general.h | 83 double forwardProb; member
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| H A D | hhalign.cpp | 1318 rHHscores->forwardProb = hit.Pforward; in hhalign()
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| /dports/math/mlpack/mlpack-3.4.2/src/mlpack/tests/ |
| H A D | hmm_test.cpp | 130 arma::mat forwardProb; variable
134 const double log = hmm.Estimate(obs, stateProb, forwardProb, backwardProb,
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| /dports/biology/mrbayes/MrBayes-3.2.7/src/ |
| H A D | proposal.c | 4174 *tk02Rate, *brlens, nu, ran, cumulativeProb, forwardProb, in Move_ExtSSClock() local
4290 forwardProb = p->d / cumulativeProb; in Move_ExtSSClock()
4337 forwardProb += a->d / cumulativeProb; in Move_ExtSSClock()
4469 (*lnProposalRatio) += log (backwardProb / forwardProb); in Move_ExtSSClock()
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