Correlations of best sites (analysis)

Analysis title

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 peaks track (must be the result of MACS or SISSRs analysis)
• 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 positional weight matrix
• Output table path – Path to the output table
• Types of site models – Select site models for comparative analysis