fillPeaks-methods            package:xcms            R Documentation

_I_n_t_e_g_r_a_t_e _a_r_e_a_s _o_f _m_i_s_s_i_n_g _p_e_a_k_s

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

     For each sample, identify peak groups where that sample is not
     represented. For each of those peak groups, integrate the signal
     in the region of that peak group and create a new peak.

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

  object: the 'xcmsSet' object

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

     After peak grouping, there will always be peak groups that do not
     include peaks from every sample. This method produces intensity
     values for those missing samples by integrating raw data in peak
     group region. In a given group, the start and ending retention
     time points for integration are defined by the median start and
     end points of the other detected peaks. The start and end m/z
     values are similarly determined.

     Importantly, if retention time correction data is available, the
     alignment information is used to more precisely integrate the
     propper region of the raw data.

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

     A 'xcmsSet' objects with filled in peak groups.

_M_e_t_h_o_d_s:

     _o_b_j_e_c_t = "_x_c_m_s_S_e_t" 'fillPeaks(object)'

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

     'xcmsSet-class', 'getPeaks'

