@Test public void testExonCount_uc0210lp() { int N = uc0210lp.getExonCount(); Assert.assertEquals(4,N); }
public int getExonCount() { return this.exonCount; }
TranscriptModel implements java.io.Serializable, Constants { public int getExonCount() { return this.exonCount; } }
TranscriptModel implements java.io.Serializable, Constants { public int getExonCount() { return this.exonCount; } private  TranscriptModel(); }
TranscriptModel implements java.io.Serializable, Constants { public int getExonCount() { return this.exonCount; } private  TranscriptModel(); static TranscriptModel createTranscriptModel(); void setAccessionNumber(String acc); void setChromosome(byte c); void setStrand(char s); void setTranscriptionStart(int st); void setTranscriptionEnd(int st); void setCdsStart(int st); void setCdsEnd(int st); void setExonCount(short c); void setExonStartsAndEnds(int[] starts, int[] ends); void initialize(); int getRefCDSEnd(); int getRVarStart(int varstart, int cumlenintron); String getCdnaSequence(); String getCodingSequence(); String getCodingSequencePlus3UTR(); int getRVarEnd(int end, int k, int cumlenintron); boolean isThreePrimeToGene(int pos); boolean isFivePrimeToGene(int pos); boolean isNearFivePrimeEnd(int pos, int threshold); boolean isNearThreePrimeEnd(int pos, int threshold); int getDistanceToThreePrimeTerminus(int pos); int getDistanceToFivePrimeTerminus(int pos); boolean isCodingGene(); boolean isNonCodingGene(); int getTXStart(); int getTXEnd(); int getCDSStart(); int getCDSEnd(); int getMRNALength(); int getCDSLength(); int getActualSequenceLength(); int getExonCount(); byte getChromosome(); int getRefCDSStart(); String getAccessionNumber(); char getStrand(); boolean isPlusStrand(); boolean isMinusStrand(); String getName(); String getGeneSymbol(); String getWTCodonNucleotides(int refvarstart, int frame_s); String getWTCodonNucleotidesAfterVariant(int refvarstart, int frame_s); int getLengthOfIntron(int k); int getLengthOfExon(int k); int getExonStart(int k); int getExonEnd(int k); int[] getExonEnds(); int[] getExonStarts(); void setSequence(String seq); void setGeneID(int id); int getGeneID(); void setGeneSymbol(String sym); void debugPrint(); void debugPrintCDS(); String getChromosomeAsString(); @Override String toString(); int getDistanceToFivePrimeTerminuscDNA(int pos); int getDistanceToCDSstart(int pos); int getDistanceToCDSend(int pos); Integer[] getChromosomalCoordinates(int start, int end); int getRefPosition(int cpos); }
TranscriptModel implements java.io.Serializable, Constants { public int getExonCount() { return this.exonCount; } private  TranscriptModel(); static TranscriptModel createTranscriptModel(); void setAccessionNumber(String acc); void setChromosome(byte c); void setStrand(char s); void setTranscriptionStart(int st); void setTranscriptionEnd(int st); void setCdsStart(int st); void setCdsEnd(int st); void setExonCount(short c); void setExonStartsAndEnds(int[] starts, int[] ends); void initialize(); int getRefCDSEnd(); int getRVarStart(int varstart, int cumlenintron); String getCdnaSequence(); String getCodingSequence(); String getCodingSequencePlus3UTR(); int getRVarEnd(int end, int k, int cumlenintron); boolean isThreePrimeToGene(int pos); boolean isFivePrimeToGene(int pos); boolean isNearFivePrimeEnd(int pos, int threshold); boolean isNearThreePrimeEnd(int pos, int threshold); int getDistanceToThreePrimeTerminus(int pos); int getDistanceToFivePrimeTerminus(int pos); boolean isCodingGene(); boolean isNonCodingGene(); int getTXStart(); int getTXEnd(); int getCDSStart(); int getCDSEnd(); int getMRNALength(); int getCDSLength(); int getActualSequenceLength(); int getExonCount(); byte getChromosome(); int getRefCDSStart(); String getAccessionNumber(); char getStrand(); boolean isPlusStrand(); boolean isMinusStrand(); String getName(); String getGeneSymbol(); String getWTCodonNucleotides(int refvarstart, int frame_s); String getWTCodonNucleotidesAfterVariant(int refvarstart, int frame_s); int getLengthOfIntron(int k); int getLengthOfExon(int k); int getExonStart(int k); int getExonEnd(int k); int[] getExonEnds(); int[] getExonStarts(); void setSequence(String seq); void setGeneID(int id); int getGeneID(); void setGeneSymbol(String sym); void debugPrint(); void debugPrintCDS(); String getChromosomeAsString(); @Override String toString(); int getDistanceToFivePrimeTerminuscDNA(int pos); int getDistanceToCDSstart(int pos); int getDistanceToCDSend(int pos); Integer[] getChromosomalCoordinates(int start, int end); int getRefPosition(int cpos); static final long serialVersionUID; }