makeAnnotationspackage:ann.Dmelanogaster.FlyBase.r51R Documentation

_F_u_n_c_t_i_o_n _u_s_e_d _t_o _p_r_o_d_u_c_e _t_h_e _a_n_n_o_t_a_t_i_o_n _d_a_t_a_s_e_t_s _p_r_o_v_i_d_e_d
_b_y _t_h_e _a_n_n._D_m_e_l_a_n_o_g_a_s_t_e_r._F_l_y_B_a_s_e._r_5_1 _p_a_c_k_a_g_e

_D_e_s_c_r_i_p_t_i_o_n:

     [TODO: Put a description]

_U_s_a_g_e:

       makeAnnotations(srcdir=".", destdir=".")

_A_r_g_u_m_e_n_t_s:

  srcdir: Path to the directory where the GFF files have been
          downloaded. 

 destdir: Path to the directory where to save the generated annotation
          datasets. 

_D_e_t_a_i_l_s:

_V_a_l_u_e:

_A_u_t_h_o_r(_s):

     H. Pages

_S_e_e _A_l_s_o:

     'getAnnGenes', 'getAnnExonParents', 'getAnnExons', 'EXON2GENE',
     'GENE_ID2NAMES', 'GFFutils'

_E_x_a_m_p_l_e_s:

       # Here is how the annotation datasets coming with the
       # ann.Dmelanogaster.FlyBase.r51 package were made:
       #
       #   1) From a Unix-shell, run the scripts provided in inst/scripts in
       #      a 'tmpdir':
       #        download-gff.sh && extract-gff.sh && clean-gff.sh && check-gff.sh
       #
       #   2) From R, call 'makeAnnotations(tmpdir)' where 'tmpdir' is the 
       #      directory containing the "clean" GFF files produced at 1).

