Update README

example/README.md

@@ -1,10 +1,10 @@
 # Mistle Example Usage
 
-A toy example is provided to test the program. A library of simulated mass spectra (predicted by Prosit) of 1000 yeast peptides is used for reference. 3 experimental spectra matching the species are retrieved from 9MM FASP dataset (Study )
+A toy example is provided to test the program. A library of 1000 simulated mass spectra (predicted by Prosit (Gessulat et al., 2019)) of yeast peptides (*Saccharomyces cerevisiae*) is used for reference. 3 experimental spectra matching the species are selected from the 9MM FASP dataset (Tanca et al., 2013).
 
-## Commands
+## Running the test
 
-Open terminal or change into this example directory. To construct the fragment index from the example spectral library, run
+Open terminal or change into this directory (path/to/mistle/example). To construct the fragment index from the example spectral library, run
 
     mistle-build -i yeast_1000.msp -o index/ -n 4 -t 1
 
@@ -14,8 +14,8 @@ Next, perform example searches
 
     mistle-search -s yeast_exp.mgf -i index/ -o example_results.csv -p 10 -b 0.2 -t 1 --hits_per_spectrum 1
 
-This should produce a *example_results.csv* file in the index directory. Compare the output to the *example_results_control.csv*, which is already present in the index/ directory. If they align, *mistle* is configured correctly and is read to use. (Note that floating-point inaccuracy may occur when using different hardware or advanced vector extensions. Results may deviate from the control in the last digit(s)).
+This should produce an *example_results.csv* file in the index/ directory. Compare the output to the *example_results_control.csv*, which is already present in the index/ directory. If they align, *mistle* is configured correctly and is read to use. (Note that floating-point inaccuracy may occur when using different hardware or advanced vector extensions. Results and scores may deviate from the control in the last digit(s)).
 
-Below, the first match of the list is displayed as mirror plot (experimental spectrum top; matched simulated spectrum bottom) generated using the python *spectrum_utils* package.
+Below, the first match of the list is displayed by a mirror plot (experimental spectrum top; matched simulated spectrum bottom) generated using the python *spectrum_utils* package.
 
 <img src="example_match.png" alt="Logo" height="400">