constraintBuilder {cosmoGUI} | R Documentation |
This command opens a series of user-friendly pop-up windows that will help the user adapt sample constraints or build new constraints from scratch.
constraintBuilder()
There are five sample constraints the user can modify: ICstep (the information content is a constant across the intervals), ICbound (the information content is bounded across each interval, V-shaped (the information content follows a symetric and continuous high-low-high), A-shaped (the information content follows a symetric and continuous low-high-low), Submotif (a segment of the motif is known).) The uiser also has the option of building a constraint set from scratch. The user will then be taken through a step-by-step construction (interval setup, palindromic intervals constraints, information content constraints, nucleotide frequencies constraints and submotif constraints.)
The function returns an object of class constraint set
, which
can be passed to cosmo()
as the constraints
argument or
plotted using the texttt{plot()} function.
Fabian Gallusser, fgallusser@berkeley.edu
#cs <- constraintBuilder() #plot(cs)