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##Custom Script to Create a Consensus Sequence (merge\_sanger\_16s.pl)  ###Download/Install  1. Create a new folder called Sanger_seqsomewhere  on your computer desktop  2. Download the script zip file, containing three scripts (merge\_sanger\_16s.pl, CleanupRDP.pl and subsample_readsp.pl)  from https://github.com/gjospin/scripts http://figshare.com/articles/Miscellaneous\_Scripts\_for\_Workflow/1086285  3. Download a zip of all of Open  the files, unzip it zip file  and move the merge\_sanger\_16s.pl script file  to the new  Sanger_seq folder ###MUSCLE  In order to run this script you will need to download MUSCLE \cite{Edgar_2004} from here: http://www.drive5.com/muscle/downloads.htm. Use the Archive Utility to open the file, change the name of the executable file from something like "muscle3.8.31\_i86darwin64" to "muscle," and move it into your Applications folder.