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  83 <B>D</B></H2>\r
  84 <DL>\r
  85 <DT><A HREF="../compbio/data/sequence/SequenceUtil.html#deepCleanSequence(java.lang.String)"><B>deepCleanSequence(String)</B></A> - \r
  86 Static method in class compbio.data.sequence.<A HREF="../compbio/data/sequence/SequenceUtil.html" title="class in compbio.data.sequence">SequenceUtil</A>\r
  87 <DD>Removes all special characters and digits as well as whitespace chars
  88  from the sequence\r
  89 <DT><A HREF="../compbio/data/sequence/SMERFSConstraints.html#DEFAULT_COLUMN_SCORE"><B>DEFAULT_COLUMN_SCORE</B></A> - \r
  90 Static variable in enum compbio.data.sequence.<A HREF="../compbio/data/sequence/SMERFSConstraints.html" title="enum in compbio.data.sequence">SMERFSConstraints</A>\r
  91 <DD>Default column scoring schema\r
  92 <DT><A HREF="../compbio/data/sequence/SMERFSConstraints.html#DEFAULT_GAP_THRESHOLD"><B>DEFAULT_GAP_THRESHOLD</B></A> - \r
  93 Static variable in enum compbio.data.sequence.<A HREF="../compbio/data/sequence/SMERFSConstraints.html" title="enum in compbio.data.sequence">SMERFSConstraints</A>\r
  94 <DD>Default gap threshold value for SMERFS algorithm\r
  95 <DT><A HREF="../compbio/data/sequence/SMERFSConstraints.html#DEFAULT_WINDOW_SIZE"><B>DEFAULT_WINDOW_SIZE</B></A> - \r
  96 Static variable in enum compbio.data.sequence.<A HREF="../compbio/data/sequence/SMERFSConstraints.html" title="enum in compbio.data.sequence">SMERFSConstraints</A>\r
  97 <DD>Default window size value for SMERFS algorithm\r
  98 <DT><A HREF="../compbio/data/sequence/SequenceUtil.html#DIGIT"><B>DIGIT</B></A> - \r
  99 Static variable in class compbio.data.sequence.<A HREF="../compbio/data/sequence/SequenceUtil.html" title="class in compbio.data.sequence">SequenceUtil</A>\r
 100 <DD>A digit\r
 101 <DT><A HREF="../compbio/data/sequence/DisorderMethod.html" title="enum in compbio.data.sequence"><B>DisorderMethod</B></A> - Enum in <A HREF="../compbio/data/sequence/package-summary.html">compbio.data.sequence</A><DD>&nbsp;</DL>\r
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