profileCGH               package:GLAD               R Documentation

_O_b_j_e_c_t_s _o_f _C_l_a_s_s _p_r_o_f_i_l_e_C_G_H _a_n_d _p_r_o_f_i_l_e_C_h_r

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

     Description of the objects 'profileCGH' and 'profileChr'. The last
     object corresponds to data of only one chromosome.

_D_e_t_a_i_l_s:

     'LogRatio, Chromosome' and 'PosOrder' are compulsory.

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

     Objects 'profileCGH' and 'profileChr' are composed of a list with
     the first element 'profileValues' which is a 'data.frame' with the
     following columns names: 

LogRatio: Test over Reference log-ratio.

PosOrder: The rank position of each BAC on the genome.

 PosBase: The base position of each BAC on the genome.

Chromosome: Chromosome name.

     BAC: The name of the corresponding BAC.

     ...: Other elements can be added.

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

     Philippe Hup, Philippe.Hupe@curie.fr.

_S_e_e _A_l_s_o:

     'glad'.

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

       
     data(snijders)
     profileCGH <- list(profileValues=gm13330)
     class(profileCGH) <- "profileCGH"

     profileChr <- list(profileValues=gm13330[which(gm13330$Chromosome==1),])
     class(profileChr) <- "profileChr"

