plotPeaks-methods            package:xcms            R Documentation

_P_l_o_t _a _g_r_i_d _o_f _a _l_a_r_g_e _n_u_m_b_e_r _o_f _p_e_a_k_s

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

     Plot extracted ion chromatograms for many peaks simultaneously, 
     indicating peak integration start and end points with vertical
     grey lines.

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

  object: the 'xcmsRaw' object

   peaks: matrix with peak information as produced by 'findPeaks' 

    figs: two-element vector describing the number of rows and the
          number of columns of peaks to plot, if missing then an
          approximately square grid that will fit the number of peaks
          supplied 

   width: width of chromatogram retention time to plot for each peak 

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

     This function is intended to help graphically analyze the results
     of peak picking. It can help estimate the number of false
     positives and improper integration start and end points. Its
     output is very compact and tries to waste as little space as
     possible. Each plot is labeled with rounded m/z and retention time
     separated by a space.

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


     _o_b_j_e_c_t = "_x_c_m_s_R_a_w" 'plotPeaks(object, peaks, figs, width = 200)'


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

     'xcmsRaw-class', 'findPeaks', 'split.screen'

