erankProdAltSpl        package:oneChannelGUI        R Documentation

_I_m_p_l_e_m_e_n_t_a_t_i_o_n _o_f _t_h_e _R_a_n_k _P_r_o_d_u_c_t _m_e_t_h_o_d _f_o_r _t_h_e _d_e_t_e_c_t_i_o_n _o_f _a_l_t_e_r_n_a_t_i_v_e _s_p_l_i_c_i_n_g _e_v_e_n_t_s

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

     This is a graphical interface to the RP function from RankProd
     package applied to detection of alternative splicing

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

     erankProdAltSpl()

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

     Before using this method it is strongly suggested to perform a
     filter on the basis of DABG p-values using  the filtering function
     available in the filtering menu. DABG values can be calculated if
     exon array probe set data are generated using the oneChannelGUI
     graphical implementation to APT tools. Affymetrix suggests to
     calculate probe set intensity at gene level using iterPlier and at
     exon level using plier. Subsequently SpliceIndex need to be
     calculated using the function available in the exon menu. Finally
     the Rank Product method could be applied exon by exon. For more
     details on the method see RankProd package. Selection of putative
     alternative splicing could be done using the filtering function
     available in the filtering menu of  oneChannelGUI

_V_a_l_u_e:

_N_o_t_e:

     IMPORTANT we are still evaluating the efficacy of this method for
     detection of alternative splicing events. Use it being concious of
     this!

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

     Raffaele A Calogero

_R_e_f_e_r_e_n_c_e_s:

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

     inspecting.splice, spliceIndex

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

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