Dotter User Manual

• Revision History
  • Introduction
    • Getting Started
      • Running Dotter
      • Sequence versus itself
      • Input files
        • FASTA file
          • GFF file
            • Transcripts
              • Sample GFF file
                • The Dotter Windows
                  • The dot-plot window
                  • Cross-hair
                    • Zoom in with a child Dotter
                      • The alignment tool
                        • Alignment tool menu
                        • Alignment tool shortcuts
                      • Greyramp tool
                    • Main menu
                      • File menu
                      • Edit menu
                      • View menu
                      • Help menu
                  • Settings
                    • Zoom
                      • Horizontal range
                      • Vertical range
                      • Sliding window size
                      • Show break-lines
                      • Show break-lines
                      • Show horizontal sequence labels
                      • Show vertical sequence labels
                  • Keyboard shortcuts