====== How to run and access adjusted spectral (ASC) count data ======

See [[userguide:spectralcount|]] for more details on the algorithm and parameters.

===== Run the ASC algorithm =====

  - Select one or more context of your choice (for which protein grouping have been executed)
  - Right-click and select ''Algorithms > Compute Adjusted Spectral Count''
  - Specify the values for Weight level and Spectral count level. Then ''OK''.  \\ {{:how_to:adjustedspectralcountparam.png|}}
  - A popup message will inform that previous properties will be removed. Click ''yes'' to continue.\\  {{:how_to:ascdelprop.png|}}
  - Other ones, will inform that algorithm is finish, for each context.  Click OK \\ {{:how_to:ascendalgo.png|}} 
  - [[how_to:savetomsidb|Save the MSI]] in order to store properties. 

==== View ASC data ====

Actually the ASC result is only accessible 
  - directly after ASC have been run : See Bellow
  - in comparison result : **view [[how_to:comparemulticontexts|]]**

=== after ASC have been run ===

In the output windows, (menu ''View > IDE Log''), algorithm information is display between ''--- STAT ASC Result Report ---'' and ''--- END ASC Result Report ---''. Copy and paste the output into Excel to view 
  * The first lines, gives the contexts involved in ASC.
  * Then first part display lines formatted as bellow: 

|accession|Replicate S1||||Replicate E1||||
|AT1G65260.1|Replicate S1= | PROTEO:4| TOTAL:4| WEIGHTED:4.0|Replicate E1= | PROTEO:38| TOTAL:38| WEIGHTED:38.0 |
|AT1G07320.3|Replicate S1= | PROTEO:15| TOTAL:15| WEIGHTED:15.0|Replicate E1= | PROTEO:3| TOTAL:3| WEIGHTED:3.0|
|AT5G15530.1|Replicate S1= | PROTEO:1|  TOTAL:2	| WEIGHTED:1.1764706|	Replicate E1= 	| PROTEO:0	| TOTAL:2|	 WEIGHTED:0.33333334	|
|AT1G80380.3|Replicate S1= | PROTEO:15| TOTAL:15| WEIGHTED:15.0|Replicate E1= | PROTEO:4| TOTAL:4| WEIGHTED:4.0|
|AT1G27300.1|Replicate S1= | PROTEO:-| TOTAL:-| WEIGHTED:-|Replicate E1= | PROTEO:-| TOTAL:-| WEIGHTED:-|

  * And the second part display following lines :  

| accession | Replicate S1 | Replicate E1 |
|AT1G65260.1|Replicate S1=ProteinValues{weight=0, proteoSC=4, totalSC=4, weightedSC=4.0}|Replicate E1=ProteinValues{weight=0, proteoSC=38, totalSC=38, weightedSC=38.0}|
|AT1G07320.3|Replicate S1=ProteinValues{weight=0, proteoSC=15, totalSC=15, weightedSC=15.0}|Replicate E1=ProteinValues{weight=0, proteoSC=3, totalSC=3, weightedSC=3.0}|
|AT5G15530.1|Replicate S1=ProteinValues{weight=0, proteoSC=1, totalSC=2, weightedSC=1.1764706}| Replicate E1=ProteinValues{weight=0, proteoSC=0, totalSC=2, weightedSC=0.33333334}|