|blast2lcaIn||blast2lcaIN reads in and executes perl|
|buildIntervals||Builds intervals based on a stringSet Object|
|countInside||counts the rolling abundance scores|
|countNXX||Assigns the a NXX to KOs|
|DBprep||DBprep prepares input for NEO4J database|
|distill||Returns the contigs and their assoc cDNA rpkms required for...|
|extendRange||Extends MAX diversity region to capture mRNAs mapping to ends...|
|extractLoc||extractLoc: extracts MSA information from the header of the...|
|findPerl||findPerl finds the path to the executable|
|make.map.table||make.map.table takes the output from map function (mapping...|
|mapper||Map: maps gDNA and mRNA to contigs|
|spanningOrNot||Determines nature of contigs wrt to Max Diversity Region; is...|
|upMSA||MSA of contigs against the MSA of reference sequences|
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