dstar                package:GeneMeta                R Documentation

_T_o_o_l_s _f_o_r _M_e_t_a-_a_n_a_l_y_s_i_s _o_f _g_e_n_e _e_x_p_r_e_s_s_i_o_n _d_a_t_a.

_D_e_s_c_r_i_p_t_i_o_n:

     A small number of meta-analysis functions for comparing two gene
     expression experiments are provided.

_U_s_a_g_e:

     dstar(d, n)
     getdF(data, categ)
     sigmad(d, ng1, ng2)

_A_r_g_u_m_e_n_t_s:

       d: A vector of t-statistics, ie. the output of 'getdF'.

       n: The number of t-statistics. 

    data: The data used to compute t-statistics, either a matrix or an
          'exprSet'

   categ: A vector of 0's and 1's indicating group membership.

     ng1: The number of samples in group 1.

     ng2: The number of samples in group 2.

_D_e_t_a_i_l_s:

     The functions 'getdF' compute t-test statistics for the input data
     and group membership (note that group membership must be indicated
     by a vector of 0's and 1's).

     The function 'dstar' computes an unbiased estimate of the t-test.
     The function 'sigmad' computes the variance estimate of 'dstar'.

_V_a_l_u_e:

     The different functions have different return values, but
     generally they are vectors of the requested quantities.

_A_u_t_h_o_r(_s):

     L. Lusa, R. Gray and R. Gentleman

_R_e_f_e_r_e_n_c_e_s:

     Choi et al, Combining multiple microarray studies and modeling
     interstudy variation. Bioinformatics, 2003, i84-i90.

_E_x_a_m_p_l_e_s:

       
       x = matrix(rnorm(1000), nc=10)
       ds = getdF(x, rep(c(0,1), c(5,5)))
       dst = dstar(ds, ncol(x))
       sgd = sigmad(ds, 5, 5)

