Home.md

@@ -198,13 +198,13 @@ where
 
 Each well is saved in a separate directory
 
-``` DE_WXXXX_PYYYY```
+``` DE_WXXXX_PYYYY ```
 
 If number of subpositions is > 1 then there is a subdirectory per subposition
 
-```
+``` 
 DE_WXXXX 
-	DE_WXXXX_PYYYY
+	DE_WXXXX_PYYYY 
 ```
 
 ##  [<img src="./images/up.PNG">](#back) <a name=startstop></a> Start and stop acquisition, save and load settings
@@ -255,7 +255,7 @@ Contains the commands for the microscope
   `setRoi` | Read ROIs and update ROIs for subsequent task(s) in pipeline
 
 <a name="codeoia"></a>
-####Key **CodeOia**
+#### Key **CodeOia**
 Contains commands for the image analysis program.
 
  Value | Meaning
@@ -264,7 +264,7 @@ Contains commands for the image analysis program.
 `newImage` | A new image with path filePath needs to be analysed
 
 <a name="filepath"></a>
-####Key **filePath**
+#### Key **filePath**
 Contains full path of image that needs to be analysed
 
  Value | Meaning
@@ -274,7 +274,7 @@ Contains full path of image that needs to be analysed
 
 
 <a name="xyz"></a>
-####Keys **XYZ**
+#### Keys **XYZ**
 Specifies stage positions. Coordinates with respect to upper left corner of the image (in pixels) and first slice (0,0,0). Several points are separated by `;`
 
  Value | Meaning
@@ -283,7 +283,7 @@ Specifies stage positions. Coordinates with respect to upper left corner of the
 `Y1;Y2;Y3;...` | Y positions with respect to upper corner  in pixels
 `Z1;Z2;Z3;...`  | Z positions with respect to bottom slice in pixels. If this key is left empty current focus position is used.
 
-####Keys **fcsX**, **fcsY**, **fcsZ**
+#### Keys **fcsX**, **fcsY**, **fcsZ**
 
 Specifies FCS scanner positions. Coordinates with respect to upper left corner of the image (in pixels) and first slice (0,0,0). Several points are separated by `;` 
 
@@ -296,7 +296,7 @@ Specifies FCS scanner positions. Coordinates with respect to upper left corner o
 
 
 <a name="rois"></a>
-####Keys **roiAim**, **roiType**, **roiX**, **roiY**
+#### Keys **roiAim**, **roiType**, **roiX**, **roiY**
 A ROI is defined by 4 different keys. 
 
  Value | Meaning