AptMidas            package:oneChannelGUI            R Documentation

_G_r_a_p_h_i_c_a_l _i_n_t_e_r_f_a_c_e _t_o _A_P_T _m_i_d_a_s

_D_e_s_c_r_i_p_t_i_o_n:

     This is a graphical interface to the midas program for detection
     of alternative splicing detection implemented in the Affymetrix
     APT tools

_U_s_a_g_e:

     AptMidas()

_N_o_t_e:

     For more information see Affymetrix Alternative Transcript
     Analysis Methods for Exon Arrays whitepaper. Before using MiDAS is
     strongly recomanded to filter out gene level probe sets with low
     intensity values to avoid searching alternative splicing for probe
     sets which are not expressed. This can be done using  filtering
     method implemented in oneChannelGUI which define a background
     intensity threshold on the basis of the intron exon signals of a
     set of housekeeping genes present in the exon arrays. However it
     is also possible to use a filter based on the dabg p-value
     calculated using Affymetrix APT tools. This function will also
     calculate Splice Index

_A_u_t_h_o_r(_s):

     Raffaele A Calogero

_S_e_e _A_l_s_o:

     erankProdAltSpl

