geoConvert             package:GEOmetadb             R Documentation

_C_r_o_s_s-_r_e_f_e_r_e_n_c_e _b_e_t_w_e_e_n _G_E_O _d_a_t_a _t_y_p_e_s

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

     A common task is to find all the GEO entities of one type
     associated with another GEO entity (eg., find all GEO samples
     associated with GEO platform 'GPL96'). This function provides a
     very fast mapping between entity types to facilitate queries of
     this type.

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

     geoConvert(in_list, out_type = c("gse", "gpl", "gsm", "gds", "smatrix"), sqlite_db_name = "GEOmetadb.sqlite")

_A_r_g_u_m_e_n_t_s:

 in_list: Character vector of GEO entities to convert from.

out_type: Character vector of GEO entity types to which to convert.

sqlite_db_name: The filename of the GEOmetadb sqlite database file

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

     A list of data.frames.

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

     Jack Zhu <zhujack@mail.nih.gov>

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

     http://meltzerlab.nci.nih.gov/apps/geo,
     http://gbnci.abcc.ncifcrf.gov/geo/

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

     if(file.exists("GEOmetadb.sqlite")) {
       geoConvert('GPL96',out_type='GSM')
     } else {
       print("Run getSQLiteFile() to get a copy of the GEOmetadb SQLite file
     and then rerun the example")
     }

