testdata              package:snpMatrix              R Documentation

_T_e_s_t _d_a_t_a _f_o_r _t_h_e _s_n_p_M_a_t_r_i_x _p_a_c_k_a_g_e

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

     This dataset comprises several data frames from a fictional (and
     unrealistically small) study. The dataset started off as real data
     from a screen of non-synonymous SNPs for association with type 1
     diabetes, but the original identifiers have been removed and a
     random case/control status has been generated.

_U_s_a_g_e:

     data(testdata)

_F_o_r_m_a_t:

     There are five data objects in the dataset:

'_A_u_t_o_s_o_m_e_s' An object of class '"snp.matrix"' containing genotype calls
     for 400 subjects at 9445 autosomal SNPs

'_X_c_h_r_o_m_o_s_o_m_e' An object of class '"X.snp.matrix"' containing   genotype
     calls for 400 subjects at 155 SNPs on the X chromosome

'_A_s_n_p_s' A dataframe containing information about the autosomal SNPs.
     Here it contains only one variable, 'chromosome', indicating the
     chromosomes on which the SNPs are located 

'_X_s_n_p_s' A dataframe containing information about the X chromosome 
     SNPs. Here it is empty and is only included for completeness

'_s_u_b_j_e_c_t._d_a_t_a' A dataframe containing information about the subjects
     from whom each row of SNP data was obtained. Here it contains:

   '_c_c' Case-control status

   '_s_e_x' Sex

   '_r_e_g_i_o_n' Geographical region of residence

_S_o_u_r_c_e:

     The data were obtained from the diabetes and inflammation
     laboratory (see <URL: http://www-gene.cimr.cam.ac.uk/todd>)

_R_e_f_e_r_e_n_c_e_s:

     <URL: http://www-gene.cimr.cam.ac.uk/clayton>

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

     data(testdata)
     Autosomes
     Xchromosome
     summary(Asnps)
     summary(Xsnps)
     summary(subject.data)
     summary(summary(Autosomes))
     summary(summary(Xchromosome))

