Datasets on aerobic soil metabolism of 2,4,5-T in six soils

mccall81_245T

- - -

Format

mccall81_245T

A dataframe containing the following variables.

name

the name of the compound observed. Note that T245 is used as +

Format

A dataframe containing the following variables.

name: the name of the compound observed. Note that T245 is used as an acronym for 2,4,5-T. T245 is a legitimate object name in R, which is necessary for specifying models using - mkinmod.
time: a numeric vector containing sampling times in days after + mkinmod.
time: a numeric vector containing sampling times in days after treatment
value: a numeric vector containing concentrations in percent of applied radioactivity
soil: a factor containing the name of the soil

Source

value

a numeric vector containing concentrations in percent of applied radioactivity

soil

a factor containing the name of the soil

Source

McCall P, Vrona SA, Kelley SS (1981) Fate of uniformly carbon-14 ring labelled 2,4,5-Trichlorophenoxyacetic acid and 2,4-dichlorophenoxyacetic acid. J Agric Chem 29, 100-107 - doi: 10.1021/jf00103a026

+ doi:10.1021/jf00103a026

Examples

  SFO_SFO_SFO <- mkinmod(T245 = list(type = "SFO", to = "phenol"),
-    phenol = list(type = "SFO", to = "anisole"),
-    anisole = list(type = "SFO"))
-
#> Temporary DLL for differentials generated and loaded
  # \dontrun{
-    fit.1 <- mkinfit(SFO_SFO_SFO, subset(mccall81_245T, soil == "Commerce"), quiet = TRUE)
-
#> Warning: Observations with value of zero were removed from the data
    summary(fit.1)$bpar
-
#>                         Estimate   se_notrans   t value       Pr(>t)
-#> T245_0              1.038550e+02 2.1847074945 47.537272 4.472189e-18
-#> k_T245              4.337042e-02 0.0018983965 22.845818 2.276911e-13
-#> k_phenol            4.050581e-01 0.2986993563  1.356073 9.756989e-02
-#> k_anisole           6.678742e-03 0.0008021439  8.326114 2.623177e-07
-#> f_T245_to_phenol    6.227599e-01 0.3985340558  1.562627 6.949413e-02
-#> f_phenol_to_anisole 1.000000e+00 0.6718439825  1.488441 7.867789e-02
-#> sigma               2.514628e+00 0.4907558883  5.123989 6.233157e-05
-#>                            Lower        Upper
-#> T245_0              99.246061385 1.084640e+02
-#> k_T245               0.039631621 4.746194e-02
-#> k_phenol             0.218013879 7.525762e-01
-#> k_anisole            0.005370739 8.305299e-03
-#> f_T245_to_phenol     0.547559081 6.924813e-01
-#> f_phenol_to_anisole  0.000000000 1.000000e+00
-#> sigma                1.706607296 3.322649e+00
    endpoints(fit.1)
-
#> $ff
-#>    T245_phenol      T245_sink phenol_anisole    phenol_sink 
-#>   6.227599e-01   3.772401e-01   1.000000e+00   3.773626e-10 
-#> 
-#> $distimes
-#>               DT50      DT90
-#> T245     15.982025  53.09114
-#> phenol    1.711229   5.68458
-#> anisole 103.784093 344.76329
-#> 
    # formation fraction from phenol to anisol is practically 1. As we cannot
-    # fix formation fractions when using the ilr transformation, we can turn of
-    # the sink in the model generation
-    SFO_SFO_SFO_2 <- mkinmod(T245 = list(type = "SFO", to = "phenol"),
-      phenol = list(type = "SFO", to = "anisole", sink = FALSE),
-      anisole = list(type = "SFO"))
-
#> Temporary DLL for differentials generated and loaded
    fit.2 <- mkinfit(SFO_SFO_SFO_2, subset(mccall81_245T, soil == "Commerce"),
-      quiet = TRUE)
-
#> Warning: Observations with value of zero were removed from the data
    summary(fit.2)$bpar
-
#>                      Estimate   se_notrans   t value       Pr(>t)        Lower
-#> T245_0           1.038550e+02 2.1623653066 48.028439 4.993108e-19 99.271020284
-#> k_T245           4.337042e-02 0.0018343666 23.643268 3.573556e-14  0.039650976
-#> k_phenol         4.050582e-01 0.1177237473  3.440752 1.679254e-03  0.218746587
-#> k_anisole        6.678742e-03 0.0006829745  9.778903 1.872894e-08  0.005377083
-#> f_T245_to_phenol 6.227599e-01 0.0342197875 18.198824 2.039411e-12  0.547975637
-#> sigma            2.514628e+00 0.3790944250  6.633250 2.875782e-06  1.710983655
-#>                         Upper
-#> T245_0           108.43904074
-#> k_T245             0.04743877
-#> k_phenol           0.75005585
-#> k_anisole          0.00829550
-#> f_T245_to_phenol   0.69212308
-#> sigma              3.31827222
    endpoints(fit.1)
-
#> $ff
-#>    T245_phenol      T245_sink phenol_anisole    phenol_sink 
-#>   6.227599e-01   3.772401e-01   1.000000e+00   3.773626e-10 
-#> 
-#> $distimes
-#>               DT50      DT90
-#> T245     15.982025  53.09114
-#> phenol    1.711229   5.68458
-#> anisole 103.784093 344.76329
-#> 
    plot_sep(fit.2)
-
  # }
-

Examples

  SFO_SFO_SFO <- mkinmod(T245 = list(type = "SFO", to = "phenol"),
+    phenol = list(type = "SFO", to = "anisole"),
+    anisole = list(type = "SFO"))
+#> Temporary DLL for differentials generated and loaded
+  # \dontrun{
+    fit.1 <- mkinfit(SFO_SFO_SFO, subset(mccall81_245T, soil == "Commerce"), quiet = TRUE)
+#> Warning: Observations with value of zero were removed from the data
+    summary(fit.1)$bpar
+#>                         Estimate   se_notrans   t value       Pr(>t)
+#> T245_0              1.038550e+02 2.1847074945 47.537272 4.472189e-18
+#> k_T245              4.337042e-02 0.0018983965 22.845818 2.276911e-13
+#> k_phenol            4.050581e-01 0.2986993563  1.356073 9.756989e-02
+#> k_anisole           6.678742e-03 0.0008021439  8.326114 2.623177e-07
+#> f_T245_to_phenol    6.227599e-01 0.3985340558  1.562627 6.949413e-02
+#> f_phenol_to_anisole 1.000000e+00 0.6718439825  1.488441 7.867789e-02
+#> sigma               2.514628e+00 0.4907558883  5.123989 6.233157e-05
+#>                            Lower        Upper
+#> T245_0              99.246061385 1.084640e+02
+#> k_T245               0.039631621 4.746194e-02
+#> k_phenol             0.218013879 7.525762e-01
+#> k_anisole            0.005370739 8.305299e-03
+#> f_T245_to_phenol     0.547559081 6.924813e-01
+#> f_phenol_to_anisole  0.000000000 1.000000e+00
+#> sigma                1.706607296 3.322649e+00
+    endpoints(fit.1)
+#> $ff
+#>    T245_phenol      T245_sink phenol_anisole    phenol_sink 
+#>   6.227599e-01   3.772401e-01   1.000000e+00   3.773626e-10 
+#> 
+#> $distimes
+#>               DT50      DT90
+#> T245     15.982025  53.09114
+#> phenol    1.711229   5.68458
+#> anisole 103.784093 344.76329
+#> 
+    # formation fraction from phenol to anisol is practically 1. As we cannot
+    # fix formation fractions when using the ilr transformation, we can turn of
+    # the sink in the model generation
+    SFO_SFO_SFO_2 <- mkinmod(T245 = list(type = "SFO", to = "phenol"),
+      phenol = list(type = "SFO", to = "anisole", sink = FALSE),
+      anisole = list(type = "SFO"))
+#> Temporary DLL for differentials generated and loaded
+    fit.2 <- mkinfit(SFO_SFO_SFO_2, subset(mccall81_245T, soil == "Commerce"),
+      quiet = TRUE)
+#> Warning: Observations with value of zero were removed from the data
+    summary(fit.2)$bpar
+#>                      Estimate   se_notrans   t value       Pr(>t)        Lower
+#> T245_0           1.038550e+02 2.1623653066 48.028439 4.993108e-19 99.271020284
+#> k_T245           4.337042e-02 0.0018343666 23.643268 3.573556e-14  0.039650976
+#> k_phenol         4.050582e-01 0.1177237473  3.440752 1.679254e-03  0.218746587
+#> k_anisole        6.678742e-03 0.0006829745  9.778903 1.872894e-08  0.005377083
+#> f_T245_to_phenol 6.227599e-01 0.0342197875 18.198824 2.039411e-12  0.547975637
+#> sigma            2.514628e+00 0.3790944250  6.633250 2.875782e-06  1.710983655
+#>                         Upper
+#> T245_0           108.43904074
+#> k_T245             0.04743877
+#> k_phenol           0.75005585
+#> k_anisole          0.00829550
+#> f_T245_to_phenol   0.69212308
+#> sigma              3.31827222
+    endpoints(fit.1)
+#> $ff
+#>    T245_phenol      T245_sink phenol_anisole    phenol_sink 
+#>   6.227599e-01   3.772401e-01   1.000000e+00   3.773626e-10 
+#> 
+#> $distimes
+#>               DT50      DT90
+#> T245     15.982025  53.09114
+#> phenol    1.711229   5.68458
+#> anisole 103.784093 344.76329
+#> 
+    plot_sep(fit.2)
+
+  # }
+