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| author | Johannes Ranke <jranke@uni-bremen.de> | 2017-03-30 17:54:16 +0200 |
|---|---|---|
| committer | Johannes Ranke <jranke@uni-bremen.de> | 2017-03-30 17:54:16 +0200 |
| commit | fec95dfbf0abe4175649e399eb1fcd698d482a9a (patch) | |
| tree | 6d9a95ab2b129f5929d92a8851f96af4ec80b911 /docs | |
| parent | 12a712a7b0cb0f755354f7a1f4e6e2d4c264fd13 (diff) | |
Add checkcontrols, updates, see ChangeLog
Diffstat (limited to 'docs')
| -rw-r--r-- | docs/index.html | 10 | ||||
| -rw-r--r-- | docs/reference/antifoul.html | 29 | ||||
| -rw-r--r-- | docs/reference/drcfit.html | 11 |
3 files changed, 43 insertions, 7 deletions
diff --git a/docs/index.html b/docs/index.html index 3ad6d4a..f6c1903 100644 --- a/docs/index.html +++ b/docs/index.html @@ -45,15 +45,15 @@ <div class="contents col-md-9"> A somewhat outdated package of basic and easy-to-use functions for fitting dose-response curves to continuous dose-response data, calculating some - (eco)toxicological parameters and plotting the results. Please consider using + toxicological parameters and plotting the results. Please consider using the more powerful and actively developed 'drc' package. Functions that are fitted are the cumulative density function of the lognormal distribution - (probit fit), of the logistic distribution (logit fit), of the weibull - distribution (weibull fit) and a linear-logistic model ("linlogit" fit), + ('probit' fit), of the logistic distribution ('logit' fit), of the Weibull + distribution ('weibull' fit) and a linear-logistic model ('linlogit' fit), derived from the latter, which is used to describe data showing stimulation at low doses (hormesis). In addition, functions checking, plotting and retrieving - dose-response data retrieved from a database accessed via RODBC are included. - As an alternative to the original fitting methods, the algorithms from the drc + dose-response data retrieved from a database accessed via 'RODBC' are included. + As an alternative to the original fitting methods, the algorithms from the 'drc' package can be used. </div> diff --git a/docs/reference/antifoul.html b/docs/reference/antifoul.html index 5a2b886..f5bc9fd 100644 --- a/docs/reference/antifoul.html +++ b/docs/reference/antifoul.html @@ -128,7 +128,34 @@ <span class='kw'>linlogit</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>logit</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>weibull</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>chooseone</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>, <span class='kw'>showED50</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>EDx</span> <span class='kw'>=</span> <span class='fu'>c</span>(<span class='fl'>10</span>))</div><div class='output co'>#> <span class='message'></span> -#> <span class='message'>TBT: Fitting data...</span></div><div class='output co'>#> <span class='error'>Error in ED50["1:50", "Lower"]: Indizierung außerhalb der Grenzen</span></div><div class='input'><span class='fu'>print</span>(<span class='no'>rantifoul.drc</span>, <span class='kw'>digits</span> <span class='kw'>=</span> <span class='fl'>5</span>)</div><div class='output co'>#> <span class='error'>Error in print(rantifoul.drc, digits = 5): Objekt 'rantifoul.drc' nicht gefunden</span></div></pre> +#> <span class='message'>TBT: Fitting data...</span></div><div class='output co'>#> <span class='message'></span> +#> <span class='message'>Zn Pyrithion: Fitting data...</span></div><div class='input'><span class='fu'>print</span>(<span class='no'>rantifoul.drc</span>, <span class='kw'>digits</span> <span class='kw'>=</span> <span class='fl'>5</span>)</div><div class='output co'>#> Substance ndl n lld lhd mtype logED50 2.5% 97.5% +#> 1 TBT 38 135 -2.7093 2.3979 linlogit NA NA NA +#> 2 TBT 38 135 -2.7093 2.3979 probit -0.16436 -0.28178 -0.072022 +#> 3 TBT 38 135 -2.7093 2.3979 logit -0.16012 -0.27782 -0.067603 +#> 4 TBT 38 135 -2.7093 2.3979 weibull -0.13012 -0.23786 -0.043860 +#> 5 Zn Pyrithion 27 81 -2.1072 2.0000 linlogit -0.41330 -0.54457 -0.312631 +#> 6 Zn Pyrithion 27 81 -2.1072 2.0000 probit -0.39792 -0.52005 -0.302705 +#> 7 Zn Pyrithion 27 81 -2.1072 2.0000 logit -0.40035 -0.52324 -0.304676 +#> 8 Zn Pyrithion 27 81 -2.1072 2.0000 weibull -0.37351 -0.49792 -0.276917 +#> unit sigma a b c ED50 ED50 2.5% ED50 97.5% +#> 1 microM 0.19264 0.71806 1.04061 -0.024169 NA NA NA +#> 2 microM 0.19286 0.68492 -0.64209 NA 0.68492 0.52267 0.84718 +#> 3 microM 0.19199 0.69165 1.05007 NA 0.69165 0.52744 0.85585 +#> 4 microM 0.18900 -0.13012 0.79816 NA 0.74111 0.57828 0.90394 +#> 5 microM 0.22878 0.30926 1.74257 0.611358 0.38610 0.28538 0.48682 +#> 6 microM 0.22866 0.40002 -1.04159 NA 0.40002 0.30196 0.49808 +#> 7 microM 0.22802 0.39779 1.71015 NA 0.39779 0.29975 0.49582 +#> 8 microM 0.23077 -0.37351 1.19152 NA 0.42315 0.31775 0.52855 +#> EDx10 EDx10 2.5% EDx10 97.5% +#> 1 NA NA NA +#> 2 0.093074 0.040308 0.14584 +#> 3 0.085338 0.035963 0.13471 +#> 4 0.069958 0.026197 0.11372 +#> 5 0.120238 0.043513 0.19696 +#> 6 0.116878 0.048151 0.18561 +#> 7 0.110068 0.043085 0.17705 +#> 8 0.087066 0.017958 0.15617</div></pre> </div> <div class="col-md-3 hidden-xs hidden-sm" id="sidebar"> <h2>Contents</h2> diff --git a/docs/reference/drcfit.html b/docs/reference/drcfit.html index ccf4641..75a168a 100644 --- a/docs/reference/drcfit.html +++ b/docs/reference/drcfit.html @@ -209,7 +209,16 @@ <h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2> <pre class="examples"><div class='input'><span class='fu'>data</span>(<span class='no'>antifoul</span>) <span class='no'>r</span> <span class='kw'><-</span> <span class='fu'>drcfit</span>(<span class='no'>antifoul</span>, <span class='kw'>showED50</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>EDx</span> <span class='kw'>=</span> <span class='fu'>c</span>(<span class='fl'>5</span>, <span class='fl'>10</span>, <span class='fl'>20</span>))</div><div class='output co'>#> <span class='message'></span> -#> <span class='message'>TBT: Fitting data...</span></div><div class='output co'>#> <span class='error'>Error in ED50["1:50", "Lower"]: Indizierung außerhalb der Grenzen</span></div><div class='input'><span class='fu'>format</span>(<span class='no'>r</span>, <span class='kw'>digits</span> <span class='kw'>=</span> <span class='fl'>2</span>)</div><div class='output co'>#> <span class='error'>Error in format(r, digits = 2): Objekt 'r' nicht gefunden</span></div></pre> +#> <span class='message'>TBT: Fitting data...</span></div><div class='output co'>#> <span class='message'></span> +#> <span class='message'>Zn Pyrithion: Fitting data...</span></div><div class='input'><span class='fu'>format</span>(<span class='no'>r</span>, <span class='kw'>digits</span> <span class='kw'>=</span> <span class='fl'>2</span>)</div><div class='output co'>#> Substance ndl n lld lhd mtype logED50 2.5% 97.5% unit sigma a +#> 1 TBT 38 135 -2.7 2.4 probit -0.16 -0.28 -0.072 microM 0.19 0.68 +#> 2 Zn Pyrithion 27 81 -2.1 2.0 probit -0.40 -0.52 -0.303 microM 0.23 0.40 +#> b ED50 ED50 2.5% ED50 97.5% EDx5 EDx5 2.5% EDx5 97.5% EDx10 EDx10 2.5% +#> 1 -0.64 0.68 0.52 0.85 0.053 0.015 0.091 0.093 0.040 +#> 2 -1.04 0.40 0.30 0.50 0.082 0.023 0.142 0.117 0.048 +#> EDx10 97.5% EDx20 EDx20 2.5% EDx20 97.5% +#> 1 0.15 0.18 0.11 0.26 +#> 2 0.19 0.18 0.10 0.26</div></pre> </div> <div class="col-md-3 hidden-xs hidden-sm" id="sidebar"> <h2>Contents</h2> |