userguide:contextdefinition
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userguide:contextdefinition [2009/12/16 13:59] 132.168.74.230 |
userguide:contextdefinition [2010/01/05 12:11] (current) 132.168.74.230 |
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| ===== Definition ===== | ===== Definition ===== | ||
| - | Context is a central notion in hEIDI. Basically, it contains identification results. A context contains a set of proteins identified by a set of peptides.\\ | + | Context is a central notion in hEIDI. Basically, it contains identification results, i.e. a set of proteins identified by a set of peptides.\\ |
| There are two types of contexts in hEIDI: | There are two types of contexts in hEIDI: | ||
| - | * Search context: each identification result from Mascot, or from any other identification engine, is "encapsulated" into a Search context. | + | * Search context: each identification result from Mascot, or from any other identification engine, is automatically "encapsulated" into one Search context. |
| - | * User context: it is created by the user to gather together several identification results. In order to have non-redundant sets of proteins for a given context, protein grouping process need to be run. | + | * User context: it is created by the user in order to gather together several identification results into a User context. In order to have non-redundant sets of proteins for a given context, proteins need to be grouped to build "Protein Groups". |
| - | + | ===== Context tree view ===== | |
| - | ===== GUI: Browse context tree view ===== | + | |
| ==== User Context ==== | ==== User Context ==== | ||
| + | {{:usercontextshierarchy.png |}} | ||
| + | A User context is represented by {{:usercontext.png|}}.\\ | ||
| + | A User context contains either child contexts or identifications but can't have both at the same level.\\ | ||
| - | + | There are multiple reasons for grouping several identifcations under the same User context: | |
| - | + | * Same biological origin | |
| - | {{:usercontext.png|}} | + | * Same gel |
| - | {{:usercontextshierarchy.png|}} | + | * Same culture condition |
| - | + | * Same chromatographic column | |
| + | * ... | ||
| ==== Search Context ==== | ==== Search Context ==== | ||
| - | {{:context.png|}} | + | {{:searchcontextshierarchy.png |}} |
| - | {{:searchcontextshierarchy.png|}} | + | Search context is represented by {{:context.png|}}. |
userguide/contextdefinition.1260968385.txt.gz · Last modified: 2009/12/16 13:59 by 132.168.74.230
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