Mixture of normal components (analysis)

From BioUML platform
Revision as of 16:17, 11 December 2014 by BioUML wiki Bot (Talk | contribs)

Jump to: navigation, search
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 positional weight matrix
  • Type of site model – Type of site model
  • Number of mixture components – Number of mixture components
  • P-value – P-value
  • Max iterations – Maximal number of iterations for algorithm
  • Output table – Table with charts will be created in this location
Personal tools
Namespaces

Variants
Actions
BioUML platform
Community
Modelling
Analysis & Workflows
Collaborative research
Development
Virtual biology
Wiki
Toolbox