psimi25Interactor-class

show,psimi25Interactor-method

xref,psimi25Interactor-method

A class representing interactor from PSI-MI 2.5 XML files

classes

Queries, data structure and interface to visualization of interaction datasets. This package inplements the PSI-MI 2.5 standard and supports up to now 8 databases. Further databases supporting PSI-MI 2.5 standard will be added continuously.

Jitao David Zhang

RpsiXML

R interface to PSI-MI 2.5 files

psimi25Interactor-class function

<dl>
    <dt><code>sourceDb</code>:</dt><dd>Object of class <code>"character"</code>, source database</dd> <dt><code>sourceId</code>:</dt><dd>Object of class <code>"character"</code>, ID of
      the source database </dd> <dt><code>shortLabel</code>:</dt><dd>Object of class <code>"character"</code>, short
      label of the interactor, if not available the slot will be filled
      with "fullName" node of the file</dd> <dt><code>uniprotId</code>:</dt><dd>Object of class <code>"character"</code>, UniProt
    ID of the interactor</dd> <dt><code>organismName</code>:</dt><dd>Object of class <code>"character"</code>, the
      unique name of the organism name </dd> <dt><code>taxId</code>:</dt><dd>Object of class <code>"character"</code>, the NCBI
      taxonomy ID</dd> <dt><code>xref</code>:</dt><dd> Object of class <code>"environment"</code>
      </dd> </dl> 

Slots

<dl>
  <dt>show</dt><dd><code>signature(x = "psimi25Interactor")</code>: a print method</dd> <dt>sourceDb</dt><dd><code>signature(x = "psimi25Interactor")</code>: finds
    out source database</dd> <dt>sourceId</dt><dd><code>signature(x = "psimi25Interactor")</code>: returns
    ID of the source database </dd> <dt>xref</dt><dd><code>sigature(x = "psimi25Interactor")</code>: returns
    cross-references of the given interactor</dd> </dl> 

psimi25Interactor-class: A class representing interactor from PSI-MI 2.5 XML files

Description

Arguments

Slots

Methods

Examples