sFiltert                 package:CLL                 R Documentation

_B_o_o_l_e_a_n _v_a_l_u_e_s _f_o_r _s_p_e_c_i_f_i_c _f_i_l_t_e_r_i_n_g _b_a_s_e_d _o_n _t_h_e _t-_t_e_s_t

_D_e_s_c_r_i_p_t_i_o_n:

     sFiltert is a named vector of booleans indicating whether a gene
     passed the specific and non-specific filtering steps.  The
     specific filtering was to perform row t-tests and a TRUE value was
     obtained if the p-value was less than 0.005.  So to have a TRUE
     value in sFiltert, the gene must have a row t-test p-value less
     than 0.005, an interquartile range of at least 0.5 on the log2
     scale, and at least 25% of the samples had an expression value
     greater than 100 on the normal scale (the last 2 criteria were the
     nonspecific filters). 

     A TRUE value indicates that the gene passed the filtering step and
     should be included in further analysis.

_U_s_a_g_e:

     data(sFiltert)

_F_o_r_m_a_t:

     A named vector of logicals.  The names correspond to the
     Affymetrix identifiers and the values are booleans indicating
     whether the gene passed the nonspecific and specific filtering
     (based on t-test p-values).

_S_o_u_r_c_e:

     The CLL microarray data came from  Dr. Sabina Chiaretti at
     Division of Hematology, Department of Cellular Biotechnologies and
     Hematology, University La Sapienza, Rome, Italy and Dr. Jerome
     Ritz at Department of Medicine, Brigham and Women's Hospital,
     Harvard Medical School, Boston, Massachusetts.

_E_x_a_m_p_l_e_s:

     data(sFiltert)
     data(sCLLex)
     sCLLexSF<-sCLLex[sFiltert, ]

