apEX                package:apComplex                R Documentation

_E_x_a_m_p_l_e _d_a_t_a _s_e_t _f_o_r _a_p_C_o_m_p_l_e_x _p_a_c_k_a_g_e

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

     A matrix and corresponding graph of AP-MS purifications from a
     small hypothetical experiment.

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

     data(apEX)
     data(apEXG)

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

     'apEX' is a matrix of hypothetical AP-MS data.  The 4 rows
     correspond to bait proteins and the 8 columns correspond to
     proteins found as hits in the hypothetical experiment and are
     named accordingly. The first 4 column names are the same as the 4
     row names; bait proteins can also be found as hits by other baits,
     hence their inclusion as columns in 'apEX'.  An entry of "1" in
     the ith row and jth column of 'apEX' indicates that bait protein i
     found protein j as a hit.  All other entries are "0".  There are a
     total of 9 "1" entries in the matrix, corresponding to 9
     comemberships detected in the experiment.

     'apEXG' is a 'graphNEL' object in which 8 nodes represent proteins
     and 9 directed edges represent comemberships detected in the
     purification.  Each directed edge originates at the bait and ends
     at the hit.  Each edge in 'apEXG' corresponds to an entry of "1"
     in the 'apEX' matrix. 

     These data are used in the 'apComplex' vignette.

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

     data(apEX)
     apEX

     data(apEXG)
     adj(apEXG,"P1")

