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userguide:contextdefinition [2009/12/16 13:54] 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". |
- | ===== GUI: Browse context ===== | + | ===== GUI: context tree view ===== |
- | + | ||
+ | {{: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 | ||
+ | * Same gel | ||
+ | * Same culture condition | ||
+ | * Same chromatographic column | ||
+ | * ... | ||
+ | |||
+ | ==== Search Context ==== | ||
+ | |||
+ | {{:searchcontextshierarchy.png |}} | ||
+ | Search context is represented by {{:context.png|}}. | ||
- | ===== GUI: display context details ===== | ||