clarify

prediction/README.md

@@ -25,6 +25,6 @@ The final result will be in the file newly_predicted_OGTs.txt, listing each spec
 
 ## Notes
 If you are running on your genomes not available for download: 
-1. Place each genome in a folder in the prediction directory called "genomes/XXX/" where XXX is the name of the species. The species names are unimportant for this regression and can be placeholders. However, they should be unique as they denote from which genomes features can be averaged.
+1. Place each genome in a folder in the prediction directory called "genomes/XXX/" where XXX is the name of the species. The species names are unimportant for this regression and can be placeholders. However, remember that features from the same species are averaged prior to OGT prediction.
 2. Create a tab separated file of the genomes and species pairs. Provide this file in place of genomes_retrieved.txt. 
 3. Create a file for the taxonomic classification of each species. The top line needs to be "species", then all ranks for which a species will be classified, tab separated. Each species should then be listed on a new line, followed by its classification, all tab separated. Provide this file in place of species_taxonomic.txt.