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peptidesandproteingrouping [2009/12/15 11:13] 132.168.74.230 |
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===== GUI - Execute protein grouping algorithm ===== | ===== GUI - Execute protein grouping algorithm ===== | ||
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- Right-click on the context node of your choice in the MSIExplorer view to display context sensitive menu and select "Algorithms->Group proteins..." {{ :proteingrouping:proteingroupingaction.png|Execute protein grouping}} | - Right-click on the context node of your choice in the MSIExplorer view to display context sensitive menu and select "Algorithms->Group proteins..." {{ :proteingrouping:proteingroupingaction.png|Execute protein grouping}} | ||
- | - Change parameters for protein grouping if needed. Validate. | + | - If needed, change settings for protein grouping. Validate. |
- | - When grouping is finished, the color of the context name change to red in the MSIExplorer view. | + | - When grouping process is finished, the color of the context name change to red in the MSIExplorer view. |
+ | {{:proteingrouping:proteingroupingparam.png?350 |Parameters for protein grouping}} | ||
+ | | ||
- | {{:proteingrouping:proteingroupingparam.png?350 |Parameters for protein grouping}} | + | **Protein grouping settings:** |
* Peptides having same sequence and mass are gathered together, but to avoid rejecting peptides very "close" to each other, you can specify a mass tolerance (ppm) | * Peptides having same sequence and mass are gathered together, but to avoid rejecting peptides very "close" to each other, you can specify a mass tolerance (ppm) | ||
* Optionnally, you can filter peptides according peptide length. For example, remove all peptides with a sequence lower than 6 | * Optionnally, you can filter peptides according peptide length. For example, remove all peptides with a sequence lower than 6 | ||
* Optionnally, you can filter reverse proteins and/or proteins identified with a given number of low score peptides | * Optionnally, you can filter reverse proteins and/or proteins identified with a given number of low score peptides | ||
+ | {{:proteingrouping:proteingroupingred.png|Context where proteins are grouped have a red name}} | ||
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