public void GetProteinPosition_Forward_Insertion() { int proteinStart = MappedPositionUtilities.GetProteinPosition(225); int proteinEnd = MappedPositionUtilities.GetProteinPosition(224); Assert.Equal(75, proteinStart); Assert.Equal(75, proteinEnd); }
public void GetProteinPosition_Reverse_Deletion() { int proteinStart = MappedPositionUtilities.GetProteinPosition(-1); int proteinEnd = MappedPositionUtilities.GetProteinPosition(-1); Assert.Equal(-1, proteinStart); Assert.Equal(-1, proteinEnd); }
private static IMappedPosition GetMappedPosition(ITranscriptRegion[] regions, ITranscriptRegion startRegion, int startIndex, ITranscriptRegion endRegion, int endIndex, IInterval variant, bool onReverseStrand, ICodingRegion codingRegion, byte startExonPhase, bool isInsertion) { (int cdnaStart, int cdnaEnd) = MappedPositionUtilities.GetCdnaPositions(startRegion, endRegion, variant, onReverseStrand, isInsertion); if (onReverseStrand) { Swap.Int(ref cdnaStart, ref cdnaEnd); } (int cdsStart, int cdsEnd) = MappedPositionUtilities.GetCdsPositions(codingRegion, cdnaStart, cdnaEnd, startExonPhase, isInsertion); int proteinStart = MappedPositionUtilities.GetProteinPosition(cdsStart); int proteinEnd = MappedPositionUtilities.GetProteinPosition(cdsEnd); (int exonStart, int exonEnd, int intronStart, int intronEnd) = regions.GetExonsAndIntrons(startIndex, endIndex); return(new MappedPosition(cdnaStart, cdnaEnd, cdsStart, cdsEnd, proteinStart, proteinEnd, exonStart, exonEnd, intronStart, intronEnd, startIndex, endIndex)); }