colSumamrize         package:preprocessCore         R Documentation

_S_u_m_m_a_r_i_z_e _t_h_e _c_o_l_u_m_n _o_f _m_a_t_r_i_c_e_s

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

     Compute column wise summary values of a matrix.

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

     colSummarizeAvg(y)
     colSummarizeAvgLog(y)
     colSummarizeBiweight(y)
     colSummarizeBiweightLog(y)
     colSummarizeLogAvg(y)
     colSummarizeLogMedian(y)
     colSummarizeMedian(y)
     colSummarizeMedianLog(y)
     colSummarizeMedianpolish(y)
     colSummarizeMedianpolishLog(y)

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

       y: A numeric matrix

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

     This groups of functions summarize the columns of a given
     matrices.


   '_c_o_l_S_u_m_m_a_r_i_z_e_A_v_g' Take means in column-wise manner

   '_c_o_l_S_u_m_m_a_r_i_z_e_A_v_g_L_o_g' 'log2' transform the data and then take means
        in column-wise manner

   '_c_o_l_S_u_m_m_a_r_i_z_e_B_i_w_e_i_g_h_t' Summarize each column using a one step Tukey
        Biweight procedure

   '_c_o_l_S_u_m_m_a_r_i_z_e_B_i_w_e_i_g_h_t_L_o_g' 'log2' transform the data and then
        summarize each column using a one step Tuke Biweight procedure

   '_c_o_l_S_u_m_m_a_r_i_z_e_L_o_g_A_v_g' Compute the mean of each column and then 'log2'
        transform it

   '_c_o_l_S_u_m_m_a_r_i_z_e_L_o_g_M_e_d_i_a_n' Compute the median of each column and then
        'log2' transform it

   '_c_o_l_S_u_m_m_a_r_i_z_e_M_e_d_i_a_n' Compute the median of each column

   '_c_o_l_S_u_m_m_a_r_i_z_e_M_e_d_i_a_n_L_o_g' 'log2' transform the data and then summarize
        each column using the median

   '_c_o_l_S_u_m_m_a_r_i_z_e_M_e_d_i_a_n_p_o_l_i_s_h' Use the median polish to summarize each
        column, by also using a row effect (not returned)

   '_c_o_l_S_u_m_m_a_r_i_z_e_M_e_d_i_a_n_p_o_l_i_s_h_L_o_g' 'log2' transform the data and then use
        the median polish to summarize each column, by also using a row
        effect (not returned)

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

     A list with following items: 

Estimates: Summary values for each column.

StdErrors: Standard error estimates.

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

     B. M. Bolstad   bmb@bmbolstad.com

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

     y <- matrix(10+rnorm(100),20,5)

     colSummarizeAvg(y)
     colSummarizeAvgLog(y)
     colSummarizeBiweight(y)
     colSummarizeBiweightLog(y)
     colSummarizeLogAvg(y)
     colSummarizeLogMedian(y)
     colSummarizeMedian(y)
     colSummarizeMedianLog(y)
     colSummarizeMedianpolish(y)
     colSummarizeMedianpolishLog(y)

