userguide:contextdefinition
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userguide:contextdefinition [2009/12/16 13:52] 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 is 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 in a given context, protein grouping is 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 ===== | + | ===== Context tree view ===== |
| - | + | ==== 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 | ||
| + | * Same gel | ||
| + | * Same culture condition | ||
| + | * Same chromatographic column | ||
| + | * ... | ||
| + | |||
| + | ==== Search Context ==== | ||
| + | {{:searchcontextshierarchy.png |}} | ||
| + | Search context is represented by {{:context.png|}}. | ||
| - | ===== GUI: display context details ===== | ||
userguide/contextdefinition.1260967975.txt.gz · Last modified: 2009/12/16 13:52 by 132.168.74.230
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