AnnotatedSnpCopyNumberSet-class   package:SNPchip   R Documentation

_C_l_a_s_s "_A_n_n_o_t_a_t_e_d_S_n_p_C_o_p_y_N_u_m_b_e_r_S_e_t"

_D_e_s_c_r_i_p_t_i_o_n:

     Container for copy number data

_O_b_j_e_c_t_s _f_r_o_m _t_h_e _C_l_a_s_s:

     Objects can be created by calls of the form
     'new("AnnotatedSnpCopyNumberSet", phenoData, experimentData,
     annotation, copyNumber, cnConfidence, snpLocation,
     chromosomeAnnotation, chromosome)'.

_S_l_o_t_s:

     '_c_h_r_o_m_o_s_o_m_e_A_n_n_o_t_a_t_i_o_n': Object of class 'data.frame'  

     '_a_s_s_a_y_D_a_t_a': Object of class 'AssayData'  

     '_p_h_e_n_o_D_a_t_a': Object of class 'AnnotatedDataFrame' 

     '_e_x_p_e_r_i_m_e_n_t_D_a_t_a': Object of class 'MIAME'  

     '_f_e_a_t_u_r_e_D_a_t_a': Object of class  'AnnotatedDataFrame'.  Contains
          annotation for the SNP's, such as chromosome, physical
          position, and alleles.     

     '_a_n_n_o_t_a_t_i_o_n': For 100k chips, "mapping50kHind240",
          "mapping50kXba240" , or "mapping100k".  For 500k chips, mmust
          be "mapping250kNsp" or "mapping250kSty"

     '.___c_l_a_s_s_V_e_r_s_i_o_n__': Object of class 'Versions' 

_E_x_t_e_n_d_s:

     Class 'SnpCopyNumberSet', directly. Class 'eSet', by class
     'SnpCopyNumberSet'. Class 'VersionedBiobase', by class
     'SnpCopyNumberSet'. Class 'Versioned', by class
     'SnpCopyNumberSet'.

_M_e_t_h_o_d_s:

          Methods for AnnotatedSnpCopyNumberSet

_N_o_t_e:

_A_u_t_h_o_r(_s):

_R_e_f_e_r_e_n_c_e_s:

_S_e_e _A_l_s_o:

_E_x_a_m_p_l_e_s:

