====== 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]]\\

  * 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 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.

{{: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|}}