proposeNCP               package:mlica               R Documentation

_N_u_m_b_e_r _o_f _i_n_d_e_p_e_n_d_e_n_t _c_o_m_p_o_n_e_n_t_s _p_r_o_p_o_s_a_l _f_u_n_c_t_i_o_n

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

     This function takes the output of 'PriorNormPCA' and returns for a
     given threshold the number of components to be inferred for
     subsequent ICA.

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

     proposeNCP(prPCA, thresh = 0.1)

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

   prPCA: The output object from 'PriorNormPCA'.

  thresh: Threshold on eigenvalues.

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

     A list with following components: 

       X: Normalised data matrix.

       x: Normalised data matrix projected onto selected subspace.

     pEx: Selected eigenvectors defining subspace for projection.

   pCorr: Projected correlation matrix.

     ncp: The dimension of the selected subspace(=number of independent
          components to be inferred with subsequent ICA).

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

     Andrew Teschendorff aet21@cam.ac.uk

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

_1 Hyvaerinen A., Karhunen J., and Oja E.: _Independent Component
     Analysis_, John Wiley and Sons, New York, (2001).

_2 Kreil D. and MacKay D. (2003): _Reproducibility Assessment of
     Independent Component Analysis of Expression Ratios from DNA
     microarrays_, Comparative and Functional Genomics *4* (3),300-317.

_3 Liebermeister W. (2002): _Linear Modes of gene expression determined
     by independent component analysis_, Bioinformatics *18*, no.1,
     51-60.

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

