contextcomparisons
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| - | ====== Context comparisons ====== | ||
| - | ===== Definition ===== | ||
| - | The purpose is to search for similar [[proteingroups#protein groups]], i.e. protein groups: | ||
| - | * having the same set of proteins | ||
| - | * identified by a same set of peptides | ||
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| - | The Dice coefficient is used to measure similarity (result ranges from 0 to 1). | ||
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| - | {{:diceCoef.png?102x50}} | ||
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| - | ==== Compare two contexts with each other ==== | ||
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| - | {{:contextComparison.png?260 }} | ||
| - | It compares every protein groups of the first context with every protein groups of the second context.\\ | ||
| - | Comparing two protein groups each other means: | ||
| - | * Checking the similarity of their protein sets (FIXME sameset and subset) | ||
| - | * Checking the similarity of their peptide sets | ||
| - | * Checking if "master" proteins are identical | ||
| - | |||
| - | ==== Compare N contexts ==== | ||
| - | This comparison is similar to the previous one: similarity measure and FIXME "best alignment"\\ | ||
| - | Each context is compared with a "unique reference". First of all, this reference is built from the identification union, i.e. the parent context. | ||
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| - | |{{:contextcomparisonn_1.png?280x235}} | {{:contextcomparisonn_2.png?280x235}} | {{:contextcomparisonn_3.png?280x235}} | | ||
| - | |||
| - | ===== GUI: Compare contexts each other ===== | ||
| - | {{:compareeachother.png |Compare contexts each other}} | ||
| - | - Select the two contexts (for which protein grouping has been executed) you want to compare each other | ||
| - | - Right-click and select "Algorithms->Compare with->Each Other" | ||
| - | - The comparison window display the result | ||
| - | - You can save results as a .xls, .pdf or .html file using the "Export" button | ||
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| - | {{:compareeachotherresultwindow.png|Comparison window (Each other)}} | ||
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| - | ===== GUI: Compare context with its children ===== | ||
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| - | {{:comparewithchildren.png |Compare a context with its children}} | ||
| - | - Select the context of your choice (first, protein grouping needs to be run for this context and its childs) | ||
| - | - Right-click and select “Algorithms→Compare with→Children” | ||
| - | - The comparison window display the result | ||
| - | - Select the characteristic you want to compare | ||
| - | {{:comparechildrenresultwindow.png|Result window when comparing context with its children}} | ||
contextcomparisons.1260951558.txt.gz · Last modified: 2009/12/16 09:19 by 132.168.74.230
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