BScore               package:RNAither               R Documentation

_B_S_c_o_r_e _n_o_r_m_a_l_i_z_a_t_i_o_n

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

     Normalization with BScores (see References).

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

     BScore(header, dataset, listOfArgs)

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

  header: the header of a dataset file generated with
          'generateDatasetFile' 

 dataset: an R data frame generated with 'generateDatasetFile' 

listOfArgs: a list containing:

          - a character string specifying the column whose values will
          be used for normalization 

          - a flag specifying whether controls should be excluded for
          the computation of the median polish (1) or not (0) 

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

     A list containing: 

 header : The new header (with an added entry about the normalization
          procedure in the comments) 

dataset : The new dataset with normalized values. The old values are
          saved in an extra column of the dataset with the suffix
          ".old" 

_R_e_f_e_r_e_n_c_e_s:

     C. Brideau, B. Gunter, B. Pikounis, and A. Liaw. Improved
     statistical methods for hit selection in high-throughput
     screening. J Biomol Screen, 8:634-647, 2003

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

     data(exampleHeader, package="RNAither")
     data(exampleDataset, package="RNAither")
     normres <- BScore(header, dataset, list("SigIntensity", 0))
     newheader <- normres[[1]]
     newdataset <- normres[[2]]

