ftr2xys                package:Ringo                R Documentation

_C_o_n_v_e_r_t _a _N_i_m_b_l_e_S_c_a_n _f_t_r-_f_i_l_e _i_n_t_o _a _x_y_s-_f_i_l_e

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

     Auxiliary function to convert a NimbleScan 'feature-report file'
     into a xys-file that can be used with the function 'read.xysfiles'
     of package 'oligo'.

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

     ftr2xys(ftr.file, path=getwd())

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

ftr.file: character; file path of feature report file to convert into
          an xys file

    path: file path to directory where the xys-file should be written
          to; defaults to the current working directory

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

     The output file is names as the input ftr file; with the file
     extension '.ftr' replaced by '.xys'.

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

     Function returns only 'NULL' invisibly and is only called for its
     side effect to write the xys-file into the current working
     directory.

_N_o_t_e:

     This function should only be used with one-colour Nimblegen
     microarrays and when the correct xys-file of the raw data is not
     available. The output file can be used with the function
     'read.xysfiles' of package 'oligo'.

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

     Joern Toedling toedling@ebi.ac.uk

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

      ## Not run: 
        sapply(list.files(pattern=".ftr$"),ftr2xys)
        library(oligo)
        fs = read.xysfiles(list.xysfiles())
      
     ## End(Not run)

