rtPCR                 package:gplots                 R Documentation

_T_e_r_a_t_o_g_e_n_e_s_i_s _r_t_P_C_R _d_a_t_a

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

     rtPCR data for experiments investigating a variety of markers for
     characterizing teratogenicity.

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

     data(rtPCR)

_F_o_r_m_a_t:

     A data frame with 1672 observations on the following 21 variables.

     _P_l_a_t_e_I_D a factor with levels 'A0027002' through 'A0054019'

     _T_e_s_t._S_u_b_s_t_a_n_c_e a factor with levels 'Compound A' through 'Compound
          H'

     _T_e_r_a_t_o_g_e_n_i_c_i_t_y._i_n._v_i_v_o a factor with levels 'Non' 'Strong' 'Weak /
          Moderate'

     _S_a_m_p_l_e a factor with levels 'Sample 1' - 'Sample 152'

     _R_e_p.. a factor with levels 'Rep 1' - 'Rep 21'

     _L_a_b_e_l a factor with levels 'Ctrl', 'Neg. Ctrl' 'P1' - 'P9', 'No
          Vehicle Ctrl', and 'Pos. Ctrl'

     _C_o_n_c.._u_g._m_l. a numeric vector

     _D_e_t_e_c_t_o_r a factor with levels 'ProbeType 1' - 'ProbeType 17'

     _A_v_g._d_e_l_t_a._C_t a numeric vector

     _d_e_l_t_a._C_t._S_D a numeric vector

     _d_e_l_t_a._d_e_l_t_a._C_t a numeric vector

     _R_Q a numeric vector

     _X.._R_Q a numeric vector

     _X_1_0_0.._C_u_s_t_o_m.. a numeric vector

     _X_1_0_0..._C_u_s_t_o_m.. a numeric vector

     _C_u_s_t_o_m.. a numeric vector

     _C_u_s_t_o_m..._1 a numeric vector

     _R_Q._M_i_n a numeric vector

     _R_Q._M_a_x a numeric vector

     _T_h_r_e_s_h_o_l_d a numeric vector

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

     TBA

_S_o_u_r_c_e:

     Anonymized data.

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

     data(rtPCR)

     # same scale
     overplot( RQ ~ Conc..ug.ml. | Test.Substance,
              data=rtPCR,
              subset=Detector=="ProbeType 7" & Conc..ug.ml. > 0,
              same.scale=TRUE,
              log="xy",
              f=3/4,
              main="Detector=ProbeType 7",
              xlab="Concentration (ug/ml)",
              ylab="Relative Gene Quantification"
              )

     # different scales, but force lower limit to 0.01 
     overplot( RQ ~ Conc..ug.ml. | Test.Substance,
              data=rtPCR,
              subset=Detector=="ProbeType 7" & Conc..ug.ml. > 0,
              log="xy",
              f=3/4,
              main="Detector=ProbeType 7",
              xlab="Concentration (ug/ml)",
              ylab="Relative Gene Quantification",
              min.y=0.01
              )

