BasicTrackLine-class       package:rtracklayer       R Documentation

_C_l_a_s_s "_B_a_s_i_c_T_r_a_c_k_L_i_n_e"

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

     The type of UCSC track line used to annotate most types of tracks
     (every type except Wiggle).

_O_b_j_e_c_t_s _f_r_o_m _t_h_e _C_l_a_s_s:

     Objects can be created by calls of the form 'new("BasicTrackLine",
     ...)' or parsed from a character vector track line with 'as(text,
     "BasicTrackLine")' or converted from a 'WigTrackLine' using
     'as(wig, "BasicTrackLine")'.

_S_l_o_t_s:


     '_i_t_e_m_R_g_b': Object of class '"logical"' indicating whether each
          feature in a track uploaded as BED should be drawn in its
          specified color. 

     '_u_s_e_S_c_o_r_e': Object of class '"logical"' indicating whether the
          data value should be mapped to color. 

     '_g_r_o_u_p': Object of class '"character"' naming a group to which
          this track should belong. 

     '_d_b': Object of class '"character"' indicating the associated
          genome assembly. 

     '_o_f_f_s_e_t': Object of class '"numeric"', a number added to all
          positions in the track. 

     '_u_r_l': Object of class '"character"' referring to additional
          information about this track. 

     '_h_t_m_l_U_r_l': Object of class '"character"' referring to an HTML page
          to be displayed with this track. 

     '_n_a_m_e': Object of class '"character"' specifying the name of the
          track. 

     '_d_e_s_c_r_i_p_t_i_o_n': Object of class '"character"' describing the track. 

     '_v_i_s_i_b_i_l_i_t_y': Object of class '"character"' indicating the default
          visible mode of the track, see 'UCSCTrackModes'.

     '_c_o_l_o_r': Object of class '"integer"' representing the track color
          (as from 'col2rgb'). 

     '_p_r_i_o_r_i_t_y': Object of class '"numeric"' specifying the rank of the
          track. 

_E_x_t_e_n_d_s:

     Class '"TrackLine"', directly.

_M_e_t_h_o_d_s:


     _a_s(_o_b_j_e_c_t, "_c_h_a_r_a_c_t_e_r") Export line to its string representation.

     _a_s(_o_b_j_e_c_t, '"_W_i_g_T_r_a_c_k_L_i_n_e"') Convert this line to a WIG track
          line, using defaults for slots not held in common.

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

     Michael Lawrence

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

     <URL:
     http://genome.ucsc.edu/goldenPath/help/customTrack.html#TRACK> for
     the official documentation.

_S_e_e _A_l_s_o:

     'WigTrackLine' for Wiggle tracks.

