Added '*~'
Changed the mean to median in the error rates output.  Changed --noheader to --header.  Added some error checking to getNextSeqRec.  Added the -q option and removed the irrelevent -d option in the usage output.  Limited the check for missing rows to just the top sequences.  Changed the few sequences warning to when there are less than -e sequences.  Othwer minor bug fixes and documentation fixes.
Initial Check-in.
Initial check-in.
Initial Check-in.
Added the ability to handle median and mean error rates.  Added the ability to handle tab-delimited files instead or in addition to sequence files.  Added the ability to save file inputs and use the data structures again instead of re-read the file and rebuild the data structures every time a new combination of input files is handled.  Added the -q option to parse the ID from the sequence file properly.  Updated the documentation.
Added -e to stop at a certain number of top sequences.  Added -q and -p to parse the sequence ID and abundance from the sequence file.  Changed --noheader to --header.  updated the documentation.
Added check for muscle executable.  Renamed package.  Updated package version number.  Added perl module dependencies.
Added new scripts.
Updates for version 2.0.
Removed some unnecessary errors/warnings.  Added on-the-fly first-neighbor generation.  Added -e and -a options from other scripts.  Other minor documentation updates and bug fixes.
Initial check-in.
Updated help output.
Added --outdir.  Added the ability to generate tab-delimited output (-u).  Other minor updates.
Added the ability to generate first-neighbors on the fly.  Added -e and -a.  Upgraded getFileSets to fix bugs I encountered (see perl_script_template.pl for a description of the changes).  Grouped missing neighbor file ID errors into 1 combined warning and allowed execution to continue.
Added -a to allow processing to stop at a minimum abundance threshold.