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

/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/gnomon/
H A Daligncollapser.cpp384 … TSignedSeqRange seg = amap.ShrinkToRealPoints(TSignedSeqRange(l,align.Limits().GetTo()), false); in ClipNotSupportedFlanks()
404 … TSignedSeqRange seg = amap.ShrinkToRealPoints(TSignedSeqRange(align.Limits().GetFrom(),r), false); in ClipNotSupportedFlanks()
433 …segr = amap.ShrinkToRealPoints(TSignedSeqRange(min(align.Limits().GetTo(),r),align.Limits().GetTo(… in ClipNotSupportedFlanks()
514 …segl = amap.ShrinkToRealPoints(TSignedSeqRange(align.Limits().GetFrom(),exonl.GetTo()-CUT_MARGIN),… in RemoveNotSupportedIntronsFromProt()
518 …segr = amap.ShrinkToRealPoints(TSignedSeqRange(exonr.GetFrom()+CUT_MARGIN,align.Limits().GetTo()),… in RemoveNotSupportedIntronsFromProt()
584 new_lim = amap.ShrinkToRealPoints(new_lim,false); in RemoveNotSupportedIntronsFromTranscript()
1490 l = a.GetAlignMap().ShrinkToRealPoints(l, false); in FilterAlignments()
1535 l = a.GetAlignMap().ShrinkToRealPoints(l, false); in FilterAlignments()
1565 l = a.GetAlignMap().ShrinkToRealPoints(l, false); in FilterAlignments()
1711 …TSignedSeqRange seg = amap.ShrinkToRealPoints(TSignedSeqRange(new_l,align.Limits().GetTo()),snap_t… in FilterAlignments()
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H A Dgnomon_objmgr.cpp361 TSignedSeqRange newlimits = m_alignmap.ShrinkToRealPoints(Limits(),is_protein); in CAlignModel()
388 …piece_range = m_alignmap.ShrinkToRealPoints(piece_range, is_protein); // finds first projectable i… in CAlignModel()
H A Dchainer.cpp1495 alim = amap.ShrinkToRealPoints(alim); in TrimAlignmentsIncludedInDifferentGenes()
1529 TSignedSeqRange alim(amap.ShrinkToRealPoints(a.Limits()&chain.Limits(),false)); in TrimAlignmentsIncludedInDifferentGenes()
3820 TSignedSeqRange lim = umap.ShrinkToRealPoints(palign.Limits(), true); in CreateChainsForPartialProteins()
5018 auto cds_limits_t = amap.ShrinkToRealPoints(new_limits); in SetConfirmedEnds()
5268 genome_core_lim = amap.ShrinkToRealPoints(genome_core_lim); in MainPeaks()
6359 left = amap.ShrinkToRealPoints(left,false); in FindSelenoproteinsClipProteinsToStartStop()
6362 right = amap.ShrinkToRealPoints(right,false); in FindSelenoproteinsClipProteinsToStartStop()
6586 int len = cdsmap.FShiftedLen(cdsmap.ShrinkToRealPoints(TSignedSeqRange(prev,right)),false); in InframeFraction()
6840 TSignedSeqRange newlimits = alignmap.ShrinkToRealPoints(TSignedSeqRange(a,b),false); in TrimTranscript()
8264 TSignedSeqRange shrinkedexon = alignmap.ShrinkToRealPoints(e,snap_to_codons); in EffectiveExonLength()
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H A Dgnomon_model.cpp825 …TSignedSeqRange tmp = mrnamap.ShrinkToRealPoints(TSignedSeqRange(cds_clip_limits.GetFrom(), RealCd… in Clip()
834 …TSignedSeqRange tmp = mrnamap.ShrinkToRealPoints(TSignedSeqRange(RealCdsLimits().GetFrom(),cds_cli… in Clip()
1414 …TSignedSeqRange lim = GetAlignMap().MapRangeOrigToEdited(GetAlignMap().ShrinkToRealPoints(Limits()… in PolyALen()
H A Dgnomon_seq.cpp748 TSignedSeqRange CAlignMap::ShrinkToRealPoints(TSignedSeqRange orig_range, bool snap_to_codons) cons… in ShrinkToRealPoints() function in CAlignMap
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/algo/gnomon/
H A Dgnomon_model.hpp659 … TSignedSeqRange ShrinkToRealPoints(TSignedSeqRange orig_range, bool snap_to_codons = false) const;