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Searched refs:CutExons (Results 1 – 4 of 4) sorted by relevance

/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/algo/gnomon/
H A Dgnomon_model.hpp421 …virtual void CutExons(TSignedSeqRange hole); // clip or remove exons, dangerous, should be complet…
747 …virtual void CutExons(TSignedSeqRange hole) { // clip or remove exons, dangerous, should be comple… in CutExons() function in CAlignModel
748 CGeneModel::CutExons(hole); in CutExons()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/gnomon/
H A Daligncollapser.cpp449 align.CutExons(TSignedSeqRange(segl.GetTo()+1,segr.GetFrom()-1)); in ClipNotSupportedFlanks()
477 align.CutExons(seg); in ClipNotSupportedFlanks()
534 align.CutExons(TSignedSeqRange(segl.GetTo()+1,segr.GetFrom()-1)); in RemoveNotSupportedIntronsFromProt()
618 editedmodel.CutExons(TSignedSeqRange(segl.GetTo()+1,segr.GetFrom()-1)); in RemoveNotSupportedIntronsFromTranscript()
1723 …align.CutExons(TSignedSeqRange(align.Limits().GetFrom(),seg.GetFrom()-1)); // Clip() is not frie… in FilterAlignments()
1725 … align.CutExons(TSignedSeqRange(align.Exons()[ie-1].GetTo()+1,seg.GetFrom()-1)); in FilterAlignments()
1795 …align.CutExons(TSignedSeqRange(seg.GetTo()+1, align.Limits().GetTo())); // Clip() is not friendl… in FilterAlignments()
1797 … align.CutExons(TSignedSeqRange(seg.GetTo()+1,align.Exons()[ie+1].GetFrom()-1)); in FilterAlignments()
H A Dchainer.cpp3858 unma.CutExons(hole); in CreateChainsForPartialProteins()
4880 CutExons(clip_range); in ClipChain()
4885 CutExons(clip_range); in ClipChain()
7472 model.CutExons(model.Limits()); // empty model with all atributes in MapOneModelToOrigContig()
8277 a.CutExons(a.Limits()); in transform_align()
8317 a.CutExons(a.Limits()); in transform_align()
8323 a.CutExons(a.Limits()); in transform_align()
8334 a.CutExons(*e); in transform_align()
8344 a.CutExons(TSignedSeqRange(left,e->GetTo())); in transform_align()
8352 a.CutExons(*e); in transform_align()
[all …]
H A Dgnomon_model.cpp751 void CGeneModel::CutExons(TSignedSeqRange hole) in CutExons() function in CGeneModel
1202 CutExons(TSignedSeqRange(Limits().GetFrom(),left_edge-1)); in TrimEdgesToFrameInOtherAlignGaps()
1218 CutExons(TSignedSeqRange(right_edge+1, Limits().GetTo())); in TrimEdgesToFrameInOtherAlignGaps()