depthmat               package:GraphAT               R Documentation

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

     This matrix of depths is used to obtain the predictome data in the
     paper. This is a symmetric matrix, where the i,j element
     corresponds to is the maximum depth of all annotations shared by
     genes i and j. Note that depth of a term in a specific Gene
     Ontology (BP, CC, MF) is defined as the shortest path between the
     term and the root node, where distance between nodes is measured
     by the number of edges traversed. Row labels of the matrix can be
     obtained by the row.names() function

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

     data(depthmatBP)

_F_o_r_m_a_t:

     Each of three matrices, namely depthmatBP.rda, depthmatCC.rda,
     depthmatMF.rda is a symmetric matrix whose rows and columns
     correspond to specific YEAST genes (see row labels using
     row.names()). The i,j entry of each matrix refers to the maximum
     depth shared by genes i and j under each of the BP, CC and MF
     ontlogies respectively

_S_o_u_r_c_e:

     <URL: http://www.geneontology.org>

_E_x_a_m_p_l_e_s:

      
     data(depthmatBP)
     print(row.names(depthmatBP)[1:10])

