This wizard screen only appears for reference-guided ChIP-Seq projects. The Define Binding Protein dialog allows you to define binding sites for your experiment.

Choose a Binding site type from the drop-down menu:

  • Type-in pattern – To specify your own binding site pattern for your binding protein.
  • JASPAR (PWM) – To use the JASPAR position weight matrix to locate binding sites.
  • Unknown – To use the whole genome to find peaks.

The Define Binding Proteins screen will change and offer different options based on your selection. Click on the links above or below to view help topics for the four versions of this wizard screen.

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