maQualityPlots         package:arrayQuality         R Documentation

_Q_u_a_l_i_t_a_t_i_v_e _d_i_a_g_n_o_s_t_i_c _p_l_o_t _f_o_r _g_e_n_e_r_a_l _h_y_b_r_i_d_i_z_a_t_i_o_n

_D_e_s_c_r_i_p_t_i_o_n:

     This function generates diagnostic plots for a qualitative
     assessment of slide quality.

_U_s_a_g_e:

     maQualityPlots(mrawObj, headerInfo = "", save = TRUE, dev = "png", col=NULL,
     badspotfunction=NULL, controlId = c("ID", "Name"), DEBUG = FALSE, ...)

_A_r_g_u_m_e_n_t_s:

 mrawObj: 'marrayRaw'  or 'RGList' object representing the slides to be
          tested.

headerInfo: Text to be used as header in the diagnostic plot.

    save: Logical. If 'TRUE', the plot is saved to a file.

     dev: A "character" string naming the graphics device. This will
          take arguments "png", "jpeg" and "ps" only. By default, dev
          is set to "png".

     col: Vector of colors to use to describe different categories of
          spots.

badspotfunction: Function to use for bad spots on the array.

controlId: Character string. Name of the column of the gpr file used to
          define controls (or provides the name of the probes).

   DEBUG: If 'TRUE', debug statements are printed.

     ...: additional arguments

_A_u_t_h_o_r(_s):

     Jean Yang

_E_x_a_m_p_l_e_s:

     # Example uses swirl dataset...

