Package com.affymetrix.genometryImpl

Examples of com.affymetrix.genometryImpl.BioSeq.addAnnotation()

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    String amino_acid = getAminoAcid(m2gSym);
    processCDS(children, genomic, m2gSym, mrna, protein_id, amino_acid);

        m2gSym.setID("");
        genomic.addAnnotation(m2gSym);
        mrna.addAnnotation(m2gSym);
    }

  private static String getAminoAcid(TypeContainerAnnot m2gSym){
    String residue = (String) m2gSym.getProperty("protein sequence");
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        }
        m2pSym.addSpan(mspan);
        m2pSym.addSpan(pspan);

        m2pSym.setID("");
        protein.addAnnotation(m2pSym);
        mrna.addAnnotation(m2pSym);

        // Use genometry manipulations to map cds start/end on genome to cds start/end on transcript
        //    (so that cds becomes mrna2protein symmetry on mrna (and on protein...)
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