postprocessingscript.md

@@ -89,17 +89,29 @@ time segment that was flagged between all of the channels combined. The percenta
   * ```[epoch_p]``` in ```c03_compart.cfg``` (or c6,c13,c14) for  ICSD. Default is 0.1(10%) of the channels in this time frame need to be flagged with the  ```[epoch_z] ``` mark, a higher number will make the % required larger and thus less time segments will be flagged.  
 
 # Component Classification 
+Component classification can only be done on files that have successfully run through  the complete dipfit script. It this script we make use of a plugin  tool box developed by Laura Frolich called IC_MARC (classification of Independent Components of EEG into Multiple ARtifact Classes). This plugin will look at the components generated by AMICA, and attempt to classify them by their characteristics. It then saves the probability of the component belonging to one of the following categories.
+ * Neural
+ * Eye Blink
+ * Lateral Eye Movement
+ * Heartbeat
+ * Muscle
+ * Mixed Signal
+These percentages sum to 100% and the category with the highest % is selected as the guessed type. This information is useful in getting a general overview of what type of components can be found in  your data, even if you don not completely trust its choices.
 
 ![diag3](/uploads/dfa4b9cb0401bc516f5b8ebe9524f874/diag3.png)
 
+The pie graph in diagnostics shows the fraction of components that were placed in each of the categories.  To the right of this is the breakdown of the % probabilities of the component belonging to each group. For example you can see that the first component (at the bottom), contains characteristics most like blink (navy) at ~65%, but it also contains characteristics like muscle and mixed signal that are about ~34% of the signal. The last ~1% is neural, lateral eye and heart, which do not match the component well.
+
+These figures can give you a quick idea on how well you are isolating components. Ideally you are looking for components that have have a high % in one category, indicating a clear isolation.
+
 #Creating your own plotting functions
 
+
+Sample matrix representation of the calculate->flag->mark path for a channel mark.
 |              | Epoch Number     | 1    | 2    | 3    | 4    | 5    | 6    | 7    | 8    | 9    | 10   |                |                            |
 |--------------|------------------|------|------|------|------|------|------|------|------|------|------|----------------|----------------------------|
-|              Epoch Number     | 1    | 2    | 3    | 4    | 5    | 6    | 7    | 8    | 9    | 10   |                |                            |
 | Calculation | Criteria (2.326) | 2.11 | 4.34 | 5.78 | 2.31 | 1.23 | 0.98 | 0.54 | 1.99 | 2.38 | 3.86 |                |                            |
 | Flag         | Criteria (0.1)   | 0    | 1    | 1    | 0    | 0    | 0    | 0    | 0    | 1    | 1    | 4/10 (0.4,40%) | Result: Channel is flagged |
-|              |                  |      |      |      |      |      |      |      |      |      |      |                |                            |
 
 
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