Ideogram-class         package:GenomeGraphs         R Documentation

_C_l_a_s_s "_I_d_e_o_g_r_a_m", _r_e_p_r_e_s_e_n_t _a_n _I_d_e_o_g_r_a_m

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

     An ideogram is a representation of a chromosome containing the
     banding pattern.  Note that currently ideograms are only available
     for hsapiens.

_O_b_j_e_c_t_s _f_r_o_m _t_h_e _C_l_a_s_s:

     Objects can be created by calls of the form 'new("Ideogram",
     ...)'.

_S_l_o_t_s:


     '_c_h_r_o_m_o_s_o_m_e': Object of class '"character"', representing the
          chromosome that needs to be drawn. E.g. 3 if chromosome 3
          needs to be drawn or Y for Y chromosome.

     '_d_p': Object of class '"DisplayPars"', can be used to specify the
          size  (default 1) of the ideogram in the final plot and to
          specify the highlighting color

_M_e_t_h_o_d_s:

     No methods defined with class "Ideogram" in the signature.

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

     Steffen Durinck

_R_e_f_e_r_e_n_c_e_s:

     http://www.stat.berkeley.edu/~steffen/

_S_e_e _A_l_s_o:

     objects to See Also as 'gdPlot'

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

     if(interactive()){
     data("dummyData", package="GenomeGraphs")

     minbase <- 180292097 
     maxbase <- 180492096
     ideog <- new("Ideogram", chromosome = "3")
     expres <- new("GenericArray", intensity = intensity, probeStart = exonProbePos, 
                   dp = DisplayPars(color="darkred", type="point"))
     gdPlot(list(ideog, expres), minBase = minbase, maxBase =maxbase)
     }

