Layout-class              package:rsbml              R Documentation

_S_B_M_L _t_y_p_e "_L_a_y_o_u_t"

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

     Contains the glyphs and other graphical objects that compose an
     SBML layout. Layouts are not part of the core SBML specification.
     See the reference for the  SBML layout extension specification.

_I_n_s_t_a_n_t_i_a_t_i_o_n:

     Objects can be created by calls of the form 'new("Layout", ...)'.

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


     '_i_d': Object of class '"character"' uniquely identifying this
          component. 

     '_d_i_m_e_n_s_i_o_n_s': Object of class '"Dimensions"' specifing the size of
          the layout.

     '_c_o_m_p_a_r_t_m_e_n_t_G_l_y_p_h_s': Object of class '"list"' containing the
          'CompartmentGlyph's.

     '_s_p_e_c_i_e_s_G_l_y_p_h_s': Object of class '"list"' containing the
          'SpeciesGlyph's. 

     '_r_e_a_c_t_i_o_n_G_l_y_p_h_s': Object of class '"list"' containing the
          'ReactionGlyph's. 

     '_t_e_x_t_G_l_y_p_h_s': Object of class '"list"' containing the
          'TextGlyph's. 

     '_a_d_d_i_t_i_o_n_a_l_G_r_a_p_h_i_c_a_l_O_b_j_e_c_t_s': Object of class '"list"' containing
          the additional 'GraphicalObject's that are not bound to any
          model component.  

     '_m_e_t_a_I_d': Object of class '"character"' that is an XML ID
          "described" by an RDF resource. This links an SBML element to
          an RDF resource. RDF may appear anywhere in an SBML element,
          but is usually placed inside the 'annotation' element.

     '_n_o_t_e_s': Object of class '"character"'  containing user-readable
          XHTML notes about an element. 

     '_a_n_n_o_t_a_t_i_o_n': Object of class '"character"' containing additional
          machine-readable information about an element, usually as
          RDF, such as BioPAX. This is where application-specific data
          belongs.

     '_c_v_T_e_r_m_s': Object of class '"list"' containing instances of
          'CVTerm' associated with this element.

     '_s_b_o_T_e_r_m': Object of class '"integer"' identifying a term in the
          Systems Biology Ontology (SBO).

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

     Class '"SBase"', directly.

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


     _i_d 'signature(object = "Layout")': gets the 'id' slot 

     _i_d<- 'signature(object = "Layout")': sets the 'id' slot 

     _a_d_d_i_t_i_o_n_a_l_G_r_a_p_h_i_c_a_l_O_b_j_e_c_t_s 'signature(object = "Layout")': gets
          the 'additionalGraphicalObjects' slot 

     _a_d_d_i_t_i_o_n_a_l_G_r_a_p_h_i_c_a_l_O_b_j_e_c_t_s<- 'signature(object = "Layout")': sets
          the 'additionalGraphicalObjects' slot 

     _c_o_m_p_a_r_t_m_e_n_t_G_l_y_p_h_s 'signature(object = "Layout")': gets the
          'compartmentGlyphs' slot 

     _c_o_m_p_a_r_t_m_e_n_t_G_l_y_p_h_s<- 'signature(object = "Layout")': sets the
          'compartmentGlyphs' slot 

     _d_i_m_e_n_s_i_o_n_s 'signature(object = "Layout")': gets the 'dimensions'
          slot 

     _d_i_m_e_n_s_i_o_n_s<- 'signature(object = "Layout")': sets the 'dimensions'
          slot 

     _r_e_a_c_t_i_o_n_G_l_y_p_h_s 'signature(object = "Layout")': gets the
          'reactionGlyphs' slot 

     _r_e_a_c_t_i_o_n_G_l_y_p_h_s<- 'signature(object = "Layout")': sets the
          'reactionGlyphs' slot 

     _s_p_e_c_i_e_s_G_l_y_p_h_s 'signature(object = "Layout")': gets the
          'speciesGlyphs' slot 

     _s_p_e_c_i_e_s_G_l_y_p_h_s<- 'signature(object = "Layout")': sets the
          'speciesGlyphs' slot 

     _t_e_x_t_G_l_y_p_h_s 'signature(object = "Layout")': gets the 'textGlyphs'
          slot 

     _t_e_x_t_G_l_y_p_h_s<- 'signature(object = "Layout")': sets the 'textGlyphs'
          slot 

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

     Michael Lawrence

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

     <URL: http://projects.villa-bosch.de/bcb/sbml>

