Zscore               package:genArise               R Documentation

_Z-_s_c_o_r_e_s _f_o_r _i_d_e_n_t_i_f_y_i_n_g _d_i_f_f_e_r_e_n_t_i_a_l _e_x_p_r_e_s_s_i_o_n

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

     This function identify differential expressed genes by calculating
     an intensity-dependent Z-score. This function use a sliding window
     to calculate the mean and standard deviation within a window
     surrounding each data point, and define a Z-score where Z measures
     the number of standard deviations a data point is from the mean.

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

     Zscore(spot.object,type,window.size)

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

spot.object: A spot object

    type: Type of analysis: "ri" is for a R-I analysis and "ma" is for
          M-A analysis

window.size: Size of the sliding window

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

     A dataSet object with attributes Cy3, Cy5, Id, Z-score.

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

     data(Simon)
     # Background Correction
     c.spot <- bg.correct(Simon)
     #Normalized data
     n.spot <- grid.norm(c.spot,23,24)
     #Filter spot
     f.spot <- filter.spot(n.spot)
     #Replicate filtering
     u.spot <- spotUnique(f.spot)
     #Zscore analysis
     s.spot <- Zscore(u.spot)

