userguide:pride_inspector
Differences
This shows you the differences between two versions of the page.
| Both sides previous revision Previous revision Next revision | Previous revision | ||
|
userguide:pride_inspector [2011/03/08 14:03] 132.168.74.230 |
userguide:pride_inspector [2012/03/14 12:06] (current) 132.168.73.124 |
||
|---|---|---|---|
| Line 1: | Line 1: | ||
| ====== PRIDE Inspector ====== | ====== PRIDE Inspector ====== | ||
| + | |||
| + | |||
| + | PRIDE Inspector is an application to visualize and perform a first quality assessment of MS data. \\ | ||
| + | With PRIDE Inspector users can have a close look at their own data before the actual submission, or access data already in PRIDE for data mining purposes. | ||
| + | |||
| + | ===== Download ===== | ||
| PRIDE Inspector is available at [[http://code.google.com/p/pride-toolsuite/wiki/PRIDEInspector]]\\ | PRIDE Inspector is available at [[http://code.google.com/p/pride-toolsuite/wiki/PRIDEInspector]]\\ | ||
| Line 5: | Line 11: | ||
| * Dowload the pride-inspector-X.Y.Z.zip file, then unzip.\\ | * Dowload the pride-inspector-X.Y.Z.zip file, then unzip.\\ | ||
| * To execute PRIDE Inspector, double-click on pride-inspector-X.Y.Z.jar\\ | * To execute PRIDE Inspector, double-click on pride-inspector-X.Y.Z.jar\\ | ||
| + | * To open a PRIDE XML file, select the ''File->Open File...'' menu and browse to an PRIDE XML file | ||
| + | {{:userguide:prideinspector_1.png|}} | ||
| + | ===== FAQ ===== | ||
| + | |||
| + | ==== Why do I not get the same number of peptides between hEIDI & Pride Inspector ? ==== | ||
| + | |||
| + | {{:userguide:pride_peptidecountinprideinspectorandheidi.png|}} | ||
| + | |||
| + | **Peptide unicity in an hEIDI context is based on sequence & calculated mass.**\\ | ||
| + | For example, the peptide ''FASFIDKVR'' is represented by one peptide node in the ''Peptide View''. \\ | ||
| + | This peptide matches on 15 master proteins (see the ''Protein Group(s) match(es)'' column) but 7 other proteins as well (information not visible in hEIDI)\\ | ||
| + | |||
| + | {{:userguide:pride_onepeptideinheidi.png|}} | ||
| + | |||
| + | **In Pride Inspector, a row exists for each peptide-protein match.**\\ | ||
| + | For example, the peptide ''FASFIDKVR'' appears 22 times: one row for each protein match. | ||
| - | PRIDE Inspector is an application to visualize and perform a first quality assessment of MS data. With PRIDE Inspector users can have a close look at their own data before the actual submission, or access data already in PRIDE for data mining purposes. | + | {{:userguide:pride_onepeptideinprideinspector.png|}} |
| + | So, the number of peptides in Pride Inspector is generally bigger than the peptide count in a User context. | ||
| + | ===== The Experiment Details tab ===== | ||
| + | {{:userguide:prideinspector_2.png|}} | ||
userguide/pride_inspector.1299589411.txt.gz · Last modified: 2011/03/08 14:03 by 132.168.74.230
Page Tools
Except where otherwise noted, content on this wiki is licensed under the following license: CC Attribution-Share Alike 4.0 International
