HEEBO               package:HEEBOdata               R Documentation

_A_n_n_o_t_a_t_i_o_n_s _a_n_d _c_o_n_t_r_o_l_s _f_o_r _t_h_e _H_E_E_B_O _s_e_t.

_D_e_s_c_r_i_p_t_i_o_n:

     HEEBOset: character matrix containing annotations for all oligos
     in the HEEBO set, e.g. sequence id, name, description of the
     oligo. The annotations used here come from the original HEEBO
     dataset and are not updated.

     HEEBOctrl: list of matrices describing mismatch transcripts and
     negative controls. For each of the 10 unique transcripts used to
     design the mismatch controls, we provide some annotations for all
     derived mismatch probes (like sequnce id, array identifier,
     description...), the type of mismatch (anchored or Distributed),
     the number of mismatched bases, and the binding energy. The last
     object is a list of negative controls identifiers.

     HEEBOtilingres: list of 11 vectors, one for each sequence used to
     design the series of tiling controls. Each vector contains the
     unique HEEBO identifiers and the distance from 3' end for each
     tiling controls recognizing this sequence.

_S_o_u_r_c_e:

     These data were derived from the HEEBO set description files
     provided by Ash Alizadeh. The R code used to parse the file is
     available upon request. For more information about the HEEBO set,
     please refer to http://alizadehlab.stanford.edu.

