imageScreen             package:cellHTS             R Documentation

_E_x_p_e_r_i_m_e_n_t-_w_i_d_e _q_u_a_l_i_t_y _c_o_n_t_r_o_l _p_l_o_t _o_f _a _c_e_l_l_H_T_S _o_b_j_e_c_t

_D_e_s_c_r_i_p_t_i_o_n:

     Experiment-wide quality control plot of a scored cellHTS object.

_U_s_a_g_e:

     imageScreen(x, ar=3/5, zrange)

_A_r_g_u_m_e_n_t_s:

       x: a cellHTS object that has already been scored (i.e. containg
          the slot 'score').

      ar: the desired aspect ration for the image plot (i.e. number of
          columns per number of rows)

  zrange: the range of values to be mapped into the color scale. If
          missing, zrange will be set to the range of 'x$score'.

_D_e_t_a_i_l_s:

     This function creates an image plot that gives an overview of the
     whole set of score values  from the cellHTS object 'x'.

_A_u_t_h_o_r(_s):

     Ligia Braz ligia@ebi.ac.uk

_E_x_a_m_p_l_e_s:

      datadir = system.file("KcViabSmall", package = "cellHTS")
      x = readPlateData("Platelist.txt", "KcViabilitySmall", path=datadir)
      confFile = system.file("KcViabSmall", "Plateconf.txt", package="cellHTS")
      logFile  = system.file("KcViabSmall", "Screenlog.txt", package="cellHTS")
      descripFile  = system.file("KcViabSmall", "DESCRIPTION.txt", package="cellHTS")
      x = configure(x, confFile, logFile, descripFile)
      x = normalizePlateMedian(x, zscore="-")
      x = summarizeReplicates(x) 
      imageScreen(x, zrange=c(-5,5))

