userguide:contextcomparisons
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userguide:contextcomparisons [2012/02/28 09:59] 132.168.73.124 |
userguide:contextcomparisons [2012/02/28 11:18] 132.168.73.124 |
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| ===== Details about comparison results ===== | ===== Details about comparison results ===== | ||
| - | When the comparison algorithm execution has finished, a window displays on the screen.\\ | + | When the comparison algorithm execution is finished, the comparison result is displayed in a tab.\\ |
| - | The most left column ("Union reference") displays protein groups (master protein accession) from the (virtual) union parent context.\\ | + | The most left column ("Union reference") displays the reference protein groups (master protein accession) from the union parent context (it may be a virtual context).\\ |
| For each protein group of the Union Reference context, the table displays the most "similar" protein group in each compared contexts.\\ | For each protein group of the Union Reference context, the table displays the most "similar" protein group in each compared contexts.\\ | ||
| For each compared context a default set of properties are displayed. You can change them by selecting/deselecting items in the droplist (right side). | For each compared context a default set of properties are displayed. You can change them by selecting/deselecting items in the droplist (right side). | ||
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| {{:userguide:comparevirtualconcept_3.png|}} | {{:userguide:comparevirtualconcept_3.png|}} | ||
| + | ==== Comparison result view ==== | ||
| - | __**Protein group properties**__: | + | * __ProtSim__: similarity on the **samesets of proteins** of the two protein groups\\ |
| - | * "ProtSim": similarity on the **samesets of proteins** of the two protein groups\\ | + | * __AllProtSim__: similarity on the **samesets and subsets of proteins** of the two protein groups\\ |
| - | * "AllProtSim": similarity on the **samesets and subsets of proteins** of the two protein groups\\ | + | * __PepSim__: similarity on **peptides** of the two protein groups |
| - | * "PepSim": similarity on **peptides** of the two protein groups | + | * __isSameTypical__: indicates if the **typical protein is the same** between the two protein groups |
| - | * "isSameTypical": indicates if the **typical protein is the same** between the two protein groups | + | * __Typical__: the **accession of the master** protein group |
| - | * "Typical": the **accession of the master** protein group | + | * :!: **NEW** __refLoc__: **possible values are [TYPICAL], [SAMESET], [SUBSET] or []**. This indicates where the reference protein accession is seen in the compared protein group. |
| - | * "Score": **score** for the protein group | + | * [TYPICAL] means the reference accession is seen in the compared protein group as the typical protein |
| - | * "#Pep": **number of peptides** for the protein group | + | * [SAMESET] means the reference accession is seen in the compared protein group as a sameset protein |
| - | * "#AllProt": **number of proteins** in the protein group. 'X(Y,Z)' means a total of X proteins for the whole protein group (X=Y+Z) with Y sameset proteins and Z subset proteins | + | * [SUBSET] means the reference accession is seen in the compared protein group as a subset protein |
| - | * If Spectral Count algorithm is run previously, **Spectral Count values** will be available as well | + | * [] means the reference accession is not seen in the compared protein group. In this case, ProtSim = 0 and pepSim > 0. |
| + | * :!: **NEW** __refSC__: the **spectral count of the reference protein accession** in the compared protein grouped. :!: **No need to run previously the spectral count on the context**. | ||
| + | * :!: **NEW** __refSpeSC__: the **specific (proteotypic) spectral count of the reference protein** in the compared protein group. :!: **No need to run previously the spectral count on the context**. | ||
| + | * __Score__: **score** of the compared protein group | ||
| + | * __#Pep__: **number of peptides** of the compared protein group | ||
| + | * __#AllProt__: **number of proteins** in the compared protein group. | ||
| + | * 'X(Y,Z)' means a total of X proteins for the whole protein group (X=Y+Z) with Y sameset proteins and Z subset proteins | ||
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| ===== Compare several contexts to their union ===== | ===== Compare several contexts to their union ===== | ||
userguide/contextcomparisons.txt · Last modified: 2012/02/28 11:18 by 132.168.73.124
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