Update README.md

README.md

@@ -100,4 +100,14 @@ treats collections of sratements
 The above commands are used when you have a separate R script that is 
 being evaluated in the session. In the session itself, it's just enter
 
+### Converting Shinyscreen MS2 files to MetFrag compatible format
+
+Assuming `AAs` is the Shinyscreen project folder, to create files 
+compatible with MetFrag input format follow these steps:
+
+1. Navigate to `AAs` folder using `Thunar` file browser.
+2. Right-click somewhere on the white space in the  view showing files and click on `Open Terminal Here`.
+3. In the terminal, type `ls`. Is there a `MS2` folder in there? If yes, then proceed.
+4. Type `ss2mf`. This command will create a `MS2_forMF` folder containing the MetFrag compatible input files.
+