formatting

Author: c-arthurs

README.md

@@ -19,13 +19,25 @@ This screen is used to select between the following options -
     **5 and 6 are both used as a part of the DAB analysis process when button 3 is selected**
 5. "Save images" is used to select whether you would like to save the mask images during the DAB analysis. 
 This will slow the process slightly. 
-6. Viewer window - this displays a low resolution version of the tissue core that is currently being analysed. 
+6. Viewer panel - this displays a low resolution version of the tissue core that is currently being analysed. 
 It will then show the low resolution mask of the same image that had been applied. This is useful for spotting a 
 poor threshold selection whilst analysis is running
 <br>
 
 ## TMA image export window
 ![labels](docs/images/Cut_application_screen.png) <br>
 <br>
+This window is for exporting png images from whole slide images using a map of the array that is provided by the user - 
+see [array map example](#array-map-example)
+1. Load WSI - prompts a dialog box for the user to select a ndpi or svs file
+2. Load Excel - this is a prompt to load the excel map - if the excel is named the same as the array and in the same 
+directory then it will be loaded automatically on the WSI load. if this has happened then the button will turn green. 
+This can also be used to reload the excel map at any point if the map has been changed my the user. 
+3. Overlay manually selected cores. This is applied after a user selection has been applied in panel number 5. It can 
+also be used after the cores have been moved to update the window. 
+4. 
+
 ## DAB stain threshold selection window
 ![labels](docs/images/Threshold_selector_screen.png) <br>
+
+## Array Map Example