group-methods              package:xcms              R Documentation

_G_r_o_u_p _p_e_a_k_s _f_r_o_m _d_i_f_f_e_r_e_n_t _s_a_m_p_l_e_s _t_o_g_e_t_h_e_r

_D_e_s_c_r_i_p_t_i_o_n:

     Group peaks together across samples by creating a master peak list
     and assigning corresponding peaks from all samples. It is inspired
     by the alignment algorithm of mzMine. For further details check
     <URL: http://mzmine.sourceforge.net/> and

     Katajamaa M, Miettinen J, Oresic M: MZmine: Toolbox for processing
     and visualization of mass spectrometry based molecular profile
     data. Bioinformatics (Oxford, England) 2006, 22:634?636.

_A_r_g_u_m_e_n_t_s:

  object: the 'xcmsSet' object

mzVsRTbalance: Multiplicator for mz value before calculating the
          (euclidean) distance between two peaks.

 mzCheck: Maximum tolerated distance for mz.

 rtCheck: Maximum tolerated distance for RT.

 rtCheck: Number of nearest Neighbours to check

_V_a_l_u_e:

     An 'xcmsSet' object with peak group assignments and statistics.

_M_e_t_h_o_d_s:


     _o_b_j_e_c_t = "_x_c_m_s_S_e_t" '     group(object, mzVsRTbalance=10,
          mzCheck=0.2, rtCheck=15, kNN=10) '


_S_e_e _A_l_s_o:

     'xcmsSet-class', 'group.density' and  'group.mzClust'

