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'.

