From 57c2c471b3ffbfc33e628fb947cfd2887df88e93 Mon Sep 17 00:00:00 2001
From: fauziharoon <faaozhi@gmail.com>
Date: Thu, 10 Apr 2014 09:53:12 +1000
Subject: [PATCH] Create README.md

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+annotateM
+=========
+
+Have you been having problems annotating your genome? 
+Confused on which annotation program to use? 
+Why are the annotations different using different programs?
+The ORFs are called differently and why are there more ORFs called in this program than the other?
+Would you like to have a unified automated annotation pipeline that searches against the currently existing databases
+like IMG, Uniref, COG, Pfam, TIGRfam?
+
+If yes is your answer to anyt of these questions? 
+
+Try annotateM.
+
+Dependencies:
+1) prokka
+2) blast
+3) hmmer
+4) Pfam_scan
+5) contig_extractor
+6) parallel
+
+Database files:
+1) IMG
+2) Uniref90
+3) COG
+4) Pfam
+5) TIGRfam
+
+In the near future, we will be adding more databases for searching, including RAST and KEGG.
+Would you like to make the program better? Feel free to do so and don't forget to git push afterwards.
+
+Queries here on github or at fauziharoon[at_symbol]gmail.com
+