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--- userguide:filtres [2010/01/12 13:50]
132.168.73.9
+++ userguide:filtres [2010/09/01 16:46]
132.168.73.9
@@ Line 45: / Line 45: @@
 ===== Filtering =====
+==== Master Protein Filter ====
+By default the protein groups are represented by a master protein. This master protein is the same as the one defined by mascot.
+If it doesn't suit your needs you have the possibility to change the master proteins one by one in the interface OR, in one step for all the protein groups, by using the associated filter.
+This filter use **rules** to determine which protein in the same set must be set as master. To have sufficient complexity you can **composed** multiple rules together.\\
+:!: **In a protein group the FIRST protein which matches the rules composition will be set as master.** \\
+:!: If no protein in the protein group matches the rules composition, the old one is kept. \\
+:!: If the new master don't match some ambiguous peptides (because they belonging only to the old master) they will be deleted without asking (in contrary of manual master protein changing).
+=== The rules ===
+The rules are composed as following :
+  * The field on which the filter will work : Accession or Description of the protein
+  * The operation the filter will applied : Contains, Not contains, Begins with, Ends with
+  * The text to search in the given field (**Case sensitive**)
+Example of rule :\\
+{{:userguide:master-filter_rule-window.png|}}\\
+Only the proteins with their accession number beginning with "Q70" will match this rule.
+//**Nota : you can defined up to 9 rules.**//
+=== The composition ===
+You can composed the different rules you defined to have a fine filter to set as master the proteins you want.
+The composition can contains :
+  * Rules names : R1, R2, ...
+  * Parenthesis
+  * Composition operators : and, &, &&, or, |, ||, ... See [[http://www.opensymphony.com/ognl/html/LanguageGuide/apa.html#operators|OGNL operator page]] to see all the possibilities.
+As seen below the composition part of the filter window show you the translation of the composition you maked, to verify you don't do mistakes.
+{{:userguide:master-filter_composition-window.png|}}
+=== Examples ===
+== Example 1 ==
+{{:userguide:master-filter-window.png|}}\\
+In this example, will be set as master the first protein of each protein group which have :
+  * Its Accession number Begins with 'Q70'
+  * **AND**
+  * Its Description Contains 'HUMAN'
+=> You want to set as master only the proteins which belong to HUMAN and which have their accession number begins with 'Q70'
+== Example 2 ==
+{{:userguide:master-filter-window-2.png|}}\\
+In this example, will be set as master the first protein of each protein group which have :
+  * Its Accession number not containing 'P5098'
+  * **AND**
+  * Its Description Contains 'HUMAN'
+**OR**
+  * Its Accession number not containing 'P5098'
+  * **AND**
+  * Its Description Contains 'MOUSE'
+=> You want to set as master only protein belong to HUMAN or MOUSE but never a particular protein which have an accession containing 'P5098'.

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