readClfEnv            package:affxparser            R Documentation

_P_a_r_s_i_n_g _a _C_L_F _f_i_l_e _u_s_i_n_g _A_f_f_y_m_e_t_r_i_x _F_u_s_i_o_n _S_D_K

_D_e_s_c_r_i_p_t_i_o_n:

     This function parses a CLF file using the Affymetrix Fusion SDK.
     CLF (chip layout) files contain information associating probe ids
     with chip x- and y- coordinates.

_U_s_a_g_e:

     readClfEnv(file, readBody = TRUE)

_A_r_g_u_m_e_n_t_s:

    file: 'character(1)' providing a path to the CLF file to be input.

readBody: 'logical(1)' indicating whether the entire file should be
          parsed ('TRUE') or only the file header information
          describing the chips to which the file is releavant.

_V_a_l_u_e:

     An enviroment. The 'header' element is always present; the
     remainder are present when 'readBody=TRUE'. 

  header: A list with information about the CLF file. The list contains
          elements described in the CLF file format document referenced
          below.

    dims: A length-two integer vector of chip x- and y-coordinates.

      id: An integer vector of length 'prod(dims)' containing probe
          identifiers.

       x: An integer vector of length 'prod(dims)' containing
          x-coordinates corresponding to the entries in 'id'.

       y: An integer vector of length 'prod(dims)' containing
          y-coordinates corresponding to the entries in 'id'.

_A_u_t_h_o_r(_s):

     Martin Morgan <URL: mtmorgan@fhcrc.org>

_S_e_e _A_l_s_o:

     <URL:
     https://www.affymetrix.com/support/developer/fusion/File_Format_CLF_aptv161.pdf>
     describes CLF file content.

