Correlations of best sites (analysis)

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Analysis title
Default-analysis-icon.png Correlations of best sites
Provider
Institute of Systems Biology
Class
BestSiteCorrelations
Plugin
biouml.plugins.bindingregions (Binding-regions related analyses)

Description

Best sites: correlation between best sites and characteristics of single chip-seq track; summit(yes/no)

Parameters:

  • Input track – Select input track (it can be ChIP-seq track from GTRD; thus, it can be the result of MACS or SISSRs peak-finder)
  • 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 around summit – Is around summit
  • Minimal region length – Minimal length of sequence region
  • Matrix – Path to frequency matrix
  • Types of site models – Select site models for comparative analysis
  • Path to output folder – Output folder will be created under this location when it doesn't exist
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