Added args to MutationProfiler. Need to fix bug in kmer library processing resulting from null somewhere. Updated the Jprobe launcher to redirect the user directory if the default home directory is not writable.
Updated UngappedKmer word lens to be more consistent with gapped kmer. Fixed bugs in MutationProfiler with empty kmers.
Started PeakFilter function. Created utility PeakUtil.filter() for filtering PeakGroups.
Implemented include and exclude chrom arguments for peak filter. Made row names a column in GenericTable. Fixed a few gui bugs in MutationProfiler arguments. Need to reverse jlabels in CompareSeqsArg. Need to change MutationProfiler warning to a notification in ProgressListener instead.
Reversed JLabel order in CompareSeqsArg. Changed MutationProfiler skipping warning from warning on the ErrorHandler to a ProgressListener update.
Created MutationProfile data class extending GenericTable to be returned by the MutationProfiler. Added minimum escore argument option to the MutationProfiler.