maigesRelNetM-class        package:maigesPack        R Documentation

_m_a_i_g_e_s_R_e_l_N_e_t_M _c_l_a_s_s, _s_t_o_r_e _r_e_s_u_l_t_s _o_f _r_e_l_e_v_a_n_c_e _n_e_t_w_o_r_k _a_n_a_l_y_s_i_s
(_c_o_m_p_a_r_i_n_g _t_w_o _s_a_m_p_l_e _t_y_p_e_s)

_D_e_s_c_r_i_p_t_i_o_n:

     This class defines a structure to store the results of relevance
     network analysis, using a method that compare the correlation
     values between pairs of genes in two different sample types by a
     _z_-transformation. Objects of this type are generated calling the
     function 'relNetworkM'.

_D_e_t_a_i_l_s:

     Objects of this class are produced by calling the functions
     'relNetworkM' over an object of class 'maiges' to search for pairs
     of genes with altered correlation values between two sample types
     tested.

_S_l_o_t_s:


     '_W': numeric matrix giving the W values of the genes tested. This
          information is useful for doing plots representing the
          correlation coefficient values.

     '_C_o_r_r_1': numerical square matrix that store the correlation
          coefficient values between all pair of genes tested for the
          first sample type.

     '_C_o_r_r_2': numerical matrix similar to the previous one, storing the
          correlation values for the second sample type.

     '_D_i_f_P': numerical matrix that store the p-value for the comparison
          between the correlation values of both sample types tested.

     '_t_y_p_e_s': character vector giving the names of sample types tested.

     '_S_l_a_b_e_l': string with the sample label used to define the two
          sample types tested.

     '_D_a_t_e': character string giving the date and time that the object
          was generated.

     '_V._i_n_f_o': list containg three characters. The first one is a
          string containing the R version used when the object was
          created. The second is a char vector with base packages and
          the last one is another char vector with additional packages
          and version numbers.

_M_e_t_h_o_d_s:


     _i_m_a_g_e 'signature(x = 'maigesRelNetM')': image method for
          'maigesRelNetM' class. Display colour representation of the
          correlation and p-values matrices.

     _p_l_o_t 'signature(x = 'maigesRelNetM')': plot method for
          'maigesRelNetM' class. Display circular graphs representing
          the relevance networks.

     _p_r_i_n_t 'signature(x = 'maigesRelNetM')': print method for
          'maigesRelNetM' class.

     _s_h_o_w 'signature(x = 'maigesRelNetM')': show method for
          'maigesRelNetM' class.

     _s_u_m_m_a_r_y 'signature(x = 'maigesRelNetM')': summary method for
          'maigesRelNetM' class.

_A_u_t_h_o_r(_s):

     Gustavo H. Esteves <gesteves@vision.ime.usp.br>

_S_e_e _A_l_s_o:

     'relNetworkM'.

