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Mods to the MethylationArray apps, corrected a minor bug, added non paired functionality, updated the docs.

biotelerock 2013-05-29

changed /trunk/Documentation/USeqDocumentation/applications.html
changed /trunk/Documentation/USeqDocumentation/releaseNotes.txt
changed /trunk/Source/edu/utah/seq/analysis/MethylationArrayDefinedRegionScanner.java
changed /trunk/Source/edu/utah/seq/analysis/MethylationArrayScanner.java
added /trunk/Source/edu/utah/seq/data/MethylationArraySamplePair.java
/trunk/Documentation/USeqDocumentation/applications.html Diff Switch to side-by-side view
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/trunk/Documentation/USeqDocumentation/releaseNotes.txt Diff Switch to side-by-side view
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/trunk/Source/edu/utah/seq/analysis/MethylationArrayDefinedRegionScanner.java Diff Switch to side-by-side view
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/trunk/Source/edu/utah/seq/analysis/MethylationArrayScanner.java Diff Switch to side-by-side view
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/trunk/Source/edu/utah/seq/data/MethylationArraySamplePair.java Diff Switch to side-by-side view
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