Strings 2008 2 4: Difference between revisions
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* Sketch a dot plot of two sequences which are identical except that a segment is deleted from the middle of one sequence and not the other. | * Sketch a dot plot of two sequences which are identical except that a segment is deleted from the middle of one sequence and not the other. | ||
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Further reading for the Mathematics and Physics inclined | |||
[http://en.wikipedia.org/wiki/Recurrence_plot Recurrence plot of phase space trajectories] | |||
Revision as of 04:26, 16 January 2008
Visual comparison of strings
Humans are very good at identifying patterns visually. One of the first ways to compare biological sequences was to generate identity matrices and visualise them in a so called dot plot.
Computing of a dot plot
The two sequences correspond to the two dimensions of the matrix and each matrix element represents the outcome of the comparison between the two corresponding characters in the sequences. Identical character pairings are visualised by a black pixel while different characters are coloured white.
The figure below shows an example of a dot plot comparing two DNA sequencess.
INSERT FIGURE HERE
Discovery questions:
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Further reading for the Mathematics and Physics inclined
Recurrence plot of phase space trajectories
--ThomasHuber 14:02, 10 January 2008 (EST)