constraintBuilder          package:cosmoGUI          R Documentation

_G_U_I _a_s_s_i_s_t_a_n_c_e _f_o_r _c_o_n_s_t_r_u_c_t_i_n_g _c_o_n_s_t_r_a_i_n_t _s_e_t_s

_D_e_s_c_r_i_p_t_i_o_n:

     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.

_U_s_a_g_e:

     constraintBuilder()

_D_e_t_a_i_l_s:

     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.)

_V_a_l_u_e:

     The function returns an object of class 'constraint set', which
     can be passed to 'cosmo()' as the 'constraints' argument or
     plotted using the 'plot()' function.

_A_u_t_h_o_r(_s):

     Fabian Gallusser, fgallusser@berkeley.edu

_E_x_a_m_p_l_e_s:

     #cs <- constraintBuilder()
     #plot(cs)

