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Searched refs:frac_invariant_sites (Results 1 – 6 of 6) sorted by relevance

/dports/biology/iqtree/IQ-TREE-2.0.6/model/
H A Dmodelfactory.cpp606 if (tree->aln->frac_invariant_sites > 0) { in ModelFactory()
612 …alid use of +ASC_MIS because of " + convertIntToString(tree->aln->frac_invariant_sites*tree->aln->… in ModelFactory()
632 if (tree->aln->frac_invariant_sites > 0) { in ModelFactory()
646 …"Invalid use of +ASC because of " + convertIntToString(tree->aln->frac_invariant_sites*tree->aln->… in ModelFactory()
/dports/biology/iqtree/IQ-TREE-2.0.6/alignment/
H A Dalignment.h762 double frac_invariant_sites; variable
H A Dsuperalignment.cpp1610 frac_invariant_sites = 0; in countConstSite()
1621 frac_invariant_sites += (*it)->frac_invariant_sites * (*it)->getNSite(); in countConstSite()
1624 frac_invariant_sites /= nsites; in countConstSite()
H A Dalignment.cpp65 frac_invariant_sites = 0.0; in Alignment()
408 frac_invariant_sites = 0.0; in Alignment()
480 frac_invariant_sites = 0.0; in Alignment()
3691 frac_invariant_sites = ((double)num_invariant_sites) / getNSite(); in countConstSite()
/dports/biology/iqtree/IQ-TREE-2.0.6/main/
H A Dphylotesting.cpp194 void getRateHet(SeqType seq_type, string model_name, double frac_invariant_sites,
214 …getRateHet(aln->seq_type, Params::getInstance().model_name, aln->frac_invariant_sites, "1", ratehe… in getUsualModel()
1083 void getRateHet(SeqType seq_type, string model_name, double frac_invariant_sites, in getRateHet() argument
1112 else if (frac_invariant_sites == 0.0) { in getRateHet()
1134 } else if (frac_invariant_sites >= 1.0) { in getRateHet()
1151 if (frac_invariant_sites == 0.0) { in getRateHet()
1242 getRateHet(seq_type, params.model_name, aln->frac_invariant_sites, ratehet_set, ratehet); in generate()
H A Dphyloanalysis.cpp156 << round(alignment.frac_invariant_sites * alignment.getNSite()) in reportAlignment()
157 << " (= " << alignment.frac_invariant_sites * 100 << "% of all sites)" << endl in reportAlignment()