IDProbes               package:snapCGH               R Documentation

_I_n_t_e_r_a_c_t_i_v_e _v_e_r_s_i_o_n _o_f _g_e_n_o_m_e_P_l_o_t

_D_e_s_c_r_i_p_t_i_o_n:

     Interactive version of 'genomePlot'.  Allows the user to click
     near a probe and the name of that probe will be displayed next to
     it.

_U_s_a_g_e:

     IDProbes(input, array = 1, naut = 22, Y = FALSE, X
                      = FALSE, status, values, pch, cex, col, chrominfo =
                      chrominfo.Mb, ylim = c(-2, 2), ylb = "Log2Ratio",
                      chrom.to.plot = 1, xlim = c(0,NA))

_A_r_g_u_m_e_n_t_s:

   input: an object of class 'MAList' or 'SegList'

   array: integer of the array (sample) to be plotted.

    naut: number of autosomes in the organism

       Y: TRUE if chromosome Y is to be plotted, FALSE otherwise

       X: TRUE if chromosome X is to be plotted, FALSE otherwise

  status: character vector giving the control status of each spot on
          the array, of same length as the number of rows of
          'log2ratios(input)'. If omitted, all points are plotted in
          the default color, symbol and size.

  values: character vector giving values of 'status' to be highlighted
          on the plot. Defaults to unique values of 'status'. Ignored
          if there is no 'status' vector.

     pch: vector or list of plotting characters. Default to integer
          code 16. Ignored is there is no 'status' vector.

     col: numeric or character vector of colors, of the same length as
          'values'. Defaults to '1:length(values)'. Ignored if there is
          no 'status' vector.

     cex: numeric vector of plot symbol expansions, of the the same
          length as 'values'. Defaults to 0.2 for the most common
          'status' value and 1 for the others. Ignored if there is no
          'status' vector.

chrominfo: a chromosomal information associated with the mapping of the
          data.

    ylim: Minimum y-scale to use for plotting.

chrom.to.plot: Specify which chromosome to plot

     ylb: label for the Y-axis.

    xlim: limits for the x-axis

_A_u_t_h_o_r(_s):

     Mike Smith

_S_e_e _A_l_s_o:

     'genomePlot'

