====== hEIDI User Guide ======



===== Concepts =====

  * [[hEIDIProject|hEIDI Project]]
  * Data concepts :
    * [[contextDefinition|Context definition]]
    * **Changed** :!: [[proteinGroups|Protein groups and peptides]]     
    * [[identRunSample|Identifications, Runs and Samples]]
    * [[properties|Properties]]
    * [[PRIDE Export Properties]]
    * [[PRIDE Converter]]
    * [[PRIDE Inspector]]
  * Operations definitions
    * [[peptidesAndProteinGrouping|Grouping peptides and proteins]]
    * [[proteinFiltering|Filter proteins [groups] ]]
    * **Changed** :!: [[contextComparisons|Contexts comparison]]
    * **Changed** :!: [[spectralCount|Spectral Count]]
    * [[retentionTimeAlignment|Retention time alignment]]
    * [[retentionTimeRecomputing|Retention time recomputing]]    
    * **New** :!: [[falsePositiveRate|False Positive Rate]]
    * **New** :!: [[umcToMsiDb|UMCs into MSIdb]]