init.data                package:sma                R Documentation

_C_r_e_a_t_i_n_g _a _D_a_t_a _S_t_r_u_c_t_u_r_e _f_o_r _M_u_l_t_i-_s_l_i_d_e _M_i_c_r_o_a_r_r_a_y _E_x_p_e_r_i_m_e_n_t_s

_D_e_s_c_r_i_p_t_i_o_n:

     Interactive function which creates a data structure for
     multi-slide microarray experiments.  The data structure is a list
     of matrices. For each spotted DNA sequence, the list stores raw
     red and green signal intensities as well as red and green
     background intensities. The function also allows the user to add
     data to an existing structure.

_U_s_a_g_e:

     init.data()

_A_r_g_u_m_e_n_t_s:

     None.

_V_a_l_u_e:

     List containing the following components: 

       R: contains the raw red intensities, R.

       G: contains the raw green intensities, G.

      Rb: contains the background red intensities, Rb.

      Gb: contains the background green intensities, Gb.

_A_u_t_h_o_r(_s):

     Yee Hwa Yang, yeehwa@stat.berkeley.edu 
      Sandrine Dudoit, sandrine@stat.berkeley.edu

_E_x_a_m_p_l_e_s:

     ## mouse.data <- init.data()

     ## Here is what you should see:
     ## Are you creating a new data matrix or adding new array data
     ## to a prexisting data matrix? 
     ## Enter "n" for creating and "a" for adding new array data: n
     ## Do the names of all your datasets have the following format: 
     ## prefix1, prefix2, prefix3?, ... Here prefix can be any name, 
     ## but the suffixes must be integers 1,2, ..., # of arrays. 
     ## Enter "y" for yes, "n" for no: y
     ## Enter the prefix:mouse
     ## Enter the number of arrays to be processed:6
     ## Enter the name of Cy3 raw data: Gmean
     ## Enter the name of Cy3 background: morphG
     ## Enter the name of Cy5 raw data: Rmean
     ## Enter the name of Cy5 background: morphR
     ## Finished creating new dataset.

