Calibprestat-class          package:mscalib          R Documentation

_C_l_a_s_s "_C_a_l_i_b_p_r_e_s_t_a_t": _p_e_p_t_i_d_e _r_u_l_e _b_a_s_e_d _c_a_l_i_b_r_a_t_i_o_n

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

     Peptide rule based calibration. Determines calibration
     coefficients using the algorithm by Wool and Smilansky. This class
     extends the class 'Calibstat-class'.

_O_b_j_e_c_t_s _f_r_o_m _t_h_e _C_l_a_s_s:

     Objects can be created by call to function 'getprecalib-methods'.

_S_l_o_t_s:

     '_f_r_e_q': Object of class '"numeric"' : the theoretical peptide
          frequency (rule) of the database. default = 1.000495 

     '_p_p_m': Object of class '"logical"' : (TRUE)

     '_i_n_f_o': Object of class '"character"'  : unique identifier 

     '_t_c_o_o_r': Object of class '"numeric"' : target coordinates

     '_C_o_e_f_f._I_n_t_e_r_c_e_p_t': Object of class '"numeric"' : intercept
          calibration coefficient 

     '_C_o_e_f_f._S_l_o_p_e': Object of class '"numeric"' : slope calibration
          coefficient 

     '_l_e_n_g_t_h_m_v': Object of class '"numeric"' : length of the
          'Massvector-class'

     '_q_u_a_l_i_t_y': Object of class '"numeric"' :  calibration coefficients
          quality measure 

_E_x_t_e_n_d_s:

     Class '"Calibstat"', directly.

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

     _a_p_p_l_y_c_a_l_i_b 'signature(obx = "Massvector", oby = "Calibprestat")':
          applys 'Calibprestat' to 'Massvector' in order to calibrate
          the masses. 

     _a_p_p_l_y_c_a_l_i_b 'signature(obx = "Massvectorlist", oby =
          "Calibprestat")': ... 

     _a_p_p_l_y_c_a_l_i_b 'signature(obx = "Calibprestat", oby = "Massvector")':
          ... 

     _c_o_e_r_c_e 'signature(from = "Calibprestat", to = "numeric")': ... 

     _c_o_e_r_c_e 'signature(from = "Calibprestat", to = "list")': ... 

     _p_l_o_t 'signature(x = "Calibprestat", y = "missing")': ... 

     _s_h_o_w 'signature(object = "Calibprestat")': ... 

_N_o_t_e:

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

     W.Wolski

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

     A. Wool and Z. Smilansky "Precalibration of matrix-assisted laser
     desorption/ionization-time of flight spectra for peptide mass
     fingerprinting" 2002 _Proteomics_ 2(10) 1365-1373

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

     'Calibstat-class','Calibintstat-class'

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

     ##---- Should be DIRECTLY executable !! ----

