Searched refs:reverseComplementBasesInPlace (Results 1 – 20 of 20) sorted by relevance
48 AminoAcid.reverseComplementBasesInPlace(bases); in reverseComplement()
143 AminoAcid.reverseComplementBasesInPlace(bases); in makeRnas()161 AminoAcid.reverseComplementBasesInPlace(bases); in makeRna()163 AminoAcid.reverseComplementBasesInPlace(bases); in makeRna()207 AminoAcid.reverseComplementBasesInPlace(bases); in makeOrfs()969 AminoAcid.reverseComplementBasesInPlace(bases); in breakOrfs()
47 if(bases!=null){AminoAcid.reverseComplementBasesInPlace(bases);} in flipSource()
186 AminoAcid.reverseComplementBasesInPlace(bases);328 AminoAcid.reverseComplementBasesInPlace(bases);
302 public static final void reverseComplementBasesInPlace(final byte[] in){ in reverseComplementBasesInPlace() method in AminoAcid303 if(in!=null){reverseComplementBasesInPlace(in, in.length);} in reverseComplementBasesInPlace()316 public static final void reverseComplementBasesInPlace(final byte[] in, final int length){ in reverseComplementBasesInPlace() method in AminoAcid
159 AminoAcid.reverseComplementBasesInPlace(ref); in realignByReversingRef()185 AminoAcid.reverseComplementBasesInPlace(ref); in realignByReversingRef()1561 AminoAcid.reverseComplementBasesInPlace(r.bases);1585 AminoAcid.reverseComplementBasesInPlace(r.bases);1742 AminoAcid.reverseComplementBasesInPlace(call);2124 AminoAcid.reverseComplementBasesInPlace(call);
1715 AminoAcid.reverseComplementBasesInPlace(bases); in makeRead()
774 AminoAcid.reverseComplementBasesInPlace(frag);839 if(randy.nextBoolean()){AminoAcid.reverseComplementBasesInPlace(frag);}
1291 AminoAcid.reverseComplementBasesInPlace(query); in alignLeft()1311 AminoAcid.reverseComplementBasesInPlace(query); in alignRight()
241 AminoAcid.reverseComplementBasesInPlace(bases2); in process()
676 if(a!=fwd){AminoAcid.reverseComplementBasesInPlace(bases);}
740 AminoAcid.reverseComplementBasesInPlace(r.bases);742 AminoAcid.reverseComplementBasesInPlace(r.bases);
801 AminoAcid.reverseComplementBasesInPlace(bases); in flip()
353 AminoAcid.reverseComplementBasesInPlace(bases); in addReadSplit()
429 AminoAcid.reverseComplementBasesInPlace(bases); in addReadSplit()
454 AminoAcid.reverseComplementBasesInPlace(bases); in addReadSplit()
626 AminoAcid.reverseComplementBasesInPlace(array, length);
452 if(seq!=bytestar){AminoAcid.reverseComplementBasesInPlace(seq);} in SamLine()563 if(seq!=bytestar){AminoAcid.reverseComplementBasesInPlace(seq);} in SamLine()1413 if(strand()==1){AminoAcid.reverseComplementBasesInPlace(seq);} in toShortMatch()1466 if(bases!=null && strand()==1){AminoAcid.reverseComplementBasesInPlace(seq);} in toShortMatch()
1325 AminoAcid.reverseComplementBasesInPlace(bases); in reverseComplement()1332 AminoAcid.reverseComplementBasesInPlace(bases); in complement()
504 AminoAcid.reverseComplementBasesInPlace(rcomp2);