Mixture of normal components (analysis)

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Analysis title
Default-analysis-icon.png Mixture of normal components
Provider
Institute of Systems Biology
Class
NormalComponentsMixture
Plugin
biouml.plugins.bindingregions (Binding-regions related analyses)

Description

Mixture of normal components for maximal IPS scores predicted in binding regions (singleTrack) of given tfClass (charts table is created)

Parameters:

  • Sequences collection – Select a source of nucleotide sequences
    • Sequences source – Select database to get sequences from or 'Custom' to specify sequences location manually
    • Sequence collection – Specify path to folder containing sequences if 'Custom' sequences source is selected
  • Is ChIP-Seq peaks – Is ChIP-Seq peaks (or merged binding regions)
  • TF class – TF class in Wingender classification (like '2.1.1.1.4')
  • Minimal region length – Minimal length of sequence region
  • Input track – Select input track (it must contain ChIP-Seq peaks or merged binding regions depending on input parameter 'Is ChIP-Seq peaks'
  • Matrix – Path to frequency matrix
  • Type of site model – Select type of site model
  • Number of mixture components – Define number of mixture components (it must be > 1
  • P-value threshold – P-value threshold
  • Maximal number of iterations – Maximal number of iterations in algorithm
  • Output table – Table with charts will be created in this location
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