spkBox               package:spkTools               R Documentation

_F_o_l_d _C_h_a_n_g_e _C_a_l_c_u_l_a_t_i_o_n_s

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

     A function to calculate the log-ratios stratified by which ALE
     groups yield the comparison. They are stratified by which bins are
     being compared to produce the given fold change.

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

     spkBox(object, spkSlopeOut, fc = 2, tol = 3, reduce=TRUE)

_A_r_g_u_m_e_n_t_s:

  object: a SpikeInExpressionSet object

spkSlopeOut: the output of the spkSlope function

      fc: the fold change of interest

     tol: the precision (number of digits after decimal point) in fc

  reduce: if TRUE the number of points plotted in the null bins is
          reduced

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

     This function requires the output of spkSlope.

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

     A list with the log-ratios separated by ALE strata comparison.

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

     Matthew N. McCall

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

     data(affy)
     affySlope <- spkSlope(affy)
     spkBox(affy,affySlope)

