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Searched refs:editedmodel (Results 1 – 2 of 2) sorted by relevance

/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/gnomon/
H A Daligncollapser.cpp548 CGeneModel editedmodel = align; in RemoveNotSupportedIntronsFromTranscript() local
589 if(!editedmodel.Exons().empty()) in RemoveNotSupportedIntronsFromTranscript()
590 editedmodel.AddHole(); in RemoveNotSupportedIntronsFromTranscript()
595 …editedmodel.FrameShifts().insert(editedmodel.FrameShifts().end(),a.FrameShifts().begin(),a.FrameSh… in RemoveNotSupportedIntronsFromTranscript()
603 …if((align.Type()&CGeneModel::eEST) && (int)editedmodel.Exons().size() == 1 && editedmodel.Limits()… in RemoveNotSupportedIntronsFromTranscript()
844 CGeneModel editedmodel = align; in CleanSelfTranscript() local
928 editedmodel.AddHole(); in CleanSelfTranscript()
944 editedmodel.FrameShifts() = edited_indels; in CleanSelfTranscript()
2132 CGeneModel editedmodel = align; in FillGapsInAlignmentAndAddToGenomicGaps() local
2205 editedmodel.AddHole(); in FillGapsInAlignmentAndAddToGenomicGaps()
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H A Dchainer.cpp7668 CGeneModel editedmodel = align; in MapOneModelToEditedContig() local
7669 editedmodel.ClearExons(); // empty alignment with all atributes in MapOneModelToEditedContig()
7805 editedmodel.AddExon(corrected_exon, e.m_fsplice_sig, e.m_ssplice_sig, e.m_ident); in MapOneModelToEditedContig()
7807 editedmodel.AddHole(); in MapOneModelToEditedContig()
7847 editedmodel.AddExon(TSignedSeqRange(left_end,left_end+gap->Len()-1), "XX", "XX", 1); in MapOneModelToEditedContig()
7851 …CAlignMap editedamap(editedmodel.Exons(), transcript_exons, editedindels, align.Orientation(), ama… in MapOneModelToEditedContig()
7853 editedmodel.FrameShifts() = editedindels; in MapOneModelToEditedContig()
7854 CAlignModel editedalign(editedmodel, editedamap); in MapOneModelToEditedContig()