goCluster FDR analysis       package:goCluster       R Documentation

_S_e_l_e_c_t _i_n_t_e_r_e_s_t_i_n_g _a_n_n_o_t_a_t_i_o_n _t_e_r_m_s _a_f_t_e_r _F_D_R _a_n_a_l_y_s_i_s

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

     These three functions are used to perform FDR analysis within
     'goCluster'. They will be combined to a single function for the
     next version.

_U_s_a_g_e:

     randomizeTree(X, elements)
     mergeAnno(X, i)
     selectAnnoStats(X, threshold)

_A_r_g_u_m_e_n_t_s:

       X: A lists of lists. 

elements: The total number of selectable elements. 

       i: Index of the annotation to select. 

threshold: Holds p-value thresholds for each annotation. 

_D_e_t_a_i_l_s:

     'randomizeTree' will accept a tree as its input and it will fill
     each terminal node of the tree with randomized integers. The
     number of integers is determined by the size of the respective
     terminal node. The minial integer possible is one, the maximal
     integer is given by the option 'elements'. 'mergeAnno' will also
     accept a tree as input and will return the element 'i' among the
     list one level above the terminal nodes of a leaf.
     'selectAnnoStats' will select all elements from the tree 'X' that
     have a p-value below the threshold given in the 'threshold'
     option. The length of the 'threshold' element has to match the
     number of annotations analyzed and represented by the tree 'X'.

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

     Gunnar Wrobel, <URL: http://www.gunnarwrobel.de>.

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

     'clusterSignifFDR-class'.

