From 68bdbe302dc271b28a58cb8a38aa7d2409763621 Mon Sep 17 00:00:00 2001
From: Sebastian Henz <sebastian.henz@ufz.de>
Date: Mon, 21 Sep 2020 16:15:25 +0200
Subject: [PATCH] Add link to multi-tox paper, closes #46
---
DESCRIPTION | 7 ++++---
NEWS.md | 4 ++++
R/data.R | 5 +++--
R/multi_tox.R | 5 +++--
R/stressaddition-package.R | 5 +++--
README.md | 2 +-
man/multi_tox.Rd | 5 +++--
man/multiple_stress.Rd | 5 +++--
man/stressaddition-package.Rd | 8 +++++---
9 files changed, 29 insertions(+), 17 deletions(-)
diff --git a/DESCRIPTION b/DESCRIPTION
index 4b0894b..e6f968e 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -1,8 +1,8 @@
Package: stressaddition
Type: Package
Title: Modelling Tri-Phasic Concentration-Response Relationships
-Version: 3.0.2
-Date: 2020-09-09
+Version: 3.0.3
+Date: 2020-09-21
Authors@R: c(person("Sebastian",
"Henz",
role = c("aut", "cre"),
@@ -22,7 +22,8 @@ Description: The stress addition approach is an alternative to the traditional
concentration addition or effect addition models. It allows the modelling
of tri-phasic concentration-response relationships either as single toxicant
experiments, in combination with an environmental stressor or as mixtures of
- two toxicants. See Liess et al. (2019) <doi:10.1038/s41598-019-51645-4>.
+ two toxicants. See Liess et al. (2019) <doi:10.1038/s41598-019-51645-4>
+ and Liess et al. (2020) <doi:10.1186/s12302-020-00394-7>.
License: GPL-3
Copyright: file inst/COPYRIGHTS
URL: https://git.ufz.de/oekotox/stressaddition
diff --git a/NEWS.md b/NEWS.md
index 3e75fb8..beb7e46 100644
--- a/NEWS.md
+++ b/NEWS.md
@@ -1,3 +1,7 @@
+# stressaddition 3.0.3
+
+* Added references to the journal article about the Multi-Tox model which was recently published.
+
# stressaddition 3.0.2
* Fixed a bug where the plotting functions printed `NULL` to the console.
diff --git a/R/data.R b/R/data.R
index eb8c1d8..0a4c6cb 100644
--- a/R/data.R
+++ b/R/data.R
@@ -41,6 +41,7 @@
#' of Pesticide Mixtures on Daphnia magna. Environ. Sci. Technol. 53,
#' 12586–12593.}
#'
-#' Liess, M., Henz, S., Shahid, N., 2020. Modelling the synergistic effects
-#' of toxicant mixtures. Manuscript submitted for publication.
+#' \href{https://doi.org/10.1186/s12302-020-00394-7}{Liess, M., Henz, S. &
+#' Shahid, N. Modeling the synergistic effects of
+#' toxicant mixtures. Environ Sci Eur 32, 119 (2020).}
"multiple_stress"
diff --git a/R/multi_tox.R b/R/multi_tox.R
index 97ae971..a7d0a94 100644
--- a/R/multi_tox.R
+++ b/R/multi_tox.R
@@ -86,8 +86,9 @@
#' mt[1:3] # The concentrations and survival of the 4 mixtures.
#'
#'
-#' @references Liess, M., Henz, S., Shahid, N., 2020. Modelling the synergistic
-#' effects of toxicant mixtures. Manuscript submitted for publication.
+#' @references \href{https://doi.org/10.1186/s12302-020-00394-7}{Liess, M.,
+#' Henz, S. & Shahid, N. Modeling the synergistic effects of
+#' toxicant mixtures. Environ Sci Eur 32, 119 (2020).}
#'
#' @export
multi_tox <- function(model_a,
diff --git a/R/stressaddition-package.R b/R/stressaddition-package.R
index c761fcb..2ac20d4 100644
--- a/R/stressaddition-package.R
+++ b/R/stressaddition-package.R
@@ -39,8 +39,9 @@
#' Henz, S. & Knillmann, S. Predicting low-concentration effects of
#' pesticides. Sci Rep 9, 15248 (2019).}
#'
-#' Liess, M., Henz, S., Shahid, N., 2020. Modelling the synergistic effects of
-#' toxicant mixtures. Manuscript submitted for publication.
+#' \href{https://doi.org/10.1186/s12302-020-00394-7}{Liess, M., Henz, S. &
+#' Shahid, N. Modeling the synergistic effects of
+#' toxicant mixtures. Environ Sci Eur 32, 119 (2020).}
#'
#' @import stats
#' @import graphics
diff --git a/README.md b/README.md
index 05c4136..0f36838 100644
--- a/README.md
+++ b/README.md
@@ -4,7 +4,7 @@ This R package makes it possible to model tri-phasic concentration-response rela
`ecxsys()` implements **EC<sub>x-SyS</sub>**, the tri-phasic concentration-response model introduced in
[Liess, M., Henz, S. & Knillmann, S. Predicting low-concentration effects of pesticides. Sci Rep 9, 15248 (2019)](https://doi.org/10.1038/s41598-019-51645-4). It is applicable to modelling ecotoxicological experiments with and without environmental stress where the response contains a hormesis effect.
-`multi_tox()` implements **Multi-TOX**, a model for binary mixtures of toxicants where each toxicant exhibits a tri-phasic concentration-response relationship. See *Liess, M., Henz, S., Shahid, N. (2020), Modelling the synergistic effects of toxicant mixtures. Manuscript submitted for publication*.
+`multi_tox()` implements **Multi-TOX**, a model for binary mixtures of toxicants where each toxicant exhibits a tri-phasic concentration-response relationship. See [Liess, M., Henz, S. & Shahid, N. Modeling the synergistic effects of toxicant mixtures. Environ Sci Eur 32, 119 (2020)](https://doi.org/10.1186/s12302-020-00394-7).
The EC<sub>x-SyS</sub> and Multi-TOX models are also available as part of the [Indicate app](http://www.systemecology.eu/indicate) which offers an easy to use graphical user interface.
diff --git a/man/multi_tox.Rd b/man/multi_tox.Rd
index 7abbb9f..47994cc 100644
--- a/man/multi_tox.Rd
+++ b/man/multi_tox.Rd
@@ -89,6 +89,7 @@ mt[1:3] # The concentrations and survival of the 4 mixtures.
}
\references{
-Liess, M., Henz, S., Shahid, N., 2020. Modelling the synergistic
- effects of toxicant mixtures. Manuscript submitted for publication.
+\href{https://doi.org/10.1186/s12302-020-00394-7}{Liess, M.,
+ Henz, S. & Shahid, N. Modeling the synergistic effects of
+ toxicant mixtures. Environ Sci Eur 32, 119 (2020).}
}
diff --git a/man/multiple_stress.Rd b/man/multiple_stress.Rd
index 8667622..1042d71 100644
--- a/man/multiple_stress.Rd
+++ b/man/multiple_stress.Rd
@@ -19,8 +19,9 @@ A data frame with 58 rows and 4 variables:
of Pesticide Mixtures on Daphnia magna. Environ. Sci. Technol. 53,
12586–12593.}
- Liess, M., Henz, S., Shahid, N., 2020. Modelling the synergistic effects
- of toxicant mixtures. Manuscript submitted for publication.
+ \href{https://doi.org/10.1186/s12302-020-00394-7}{Liess, M., Henz, S. &
+ Shahid, N. Modeling the synergistic effects of
+ toxicant mixtures. Environ Sci Eur 32, 119 (2020).}
}
\usage{
multiple_stress
diff --git a/man/stressaddition-package.Rd b/man/stressaddition-package.Rd
index 223841f..224c8fc 100644
--- a/man/stressaddition-package.Rd
+++ b/man/stressaddition-package.Rd
@@ -10,7 +10,8 @@ The stress addition approach is an alternative to the traditional
concentration addition or effect addition models. It allows the modelling
of tri-phasic concentration-response relationships either as single toxicant
experiments, in combination with an environmental stressor or as mixtures of
- two toxicants. See Liess et al. (2019) <doi:10.1038/s41598-019-51645-4>.
+ two toxicants. See Liess et al. (2019) <doi:10.1038/s41598-019-51645-4>
+ and Liess et al. (2020) <doi:10.1186/s12302-020-00394-7>.
}
\details{
This R package contains the definitions of the
@@ -26,8 +27,9 @@ This R package contains the definitions of the
Henz, S. & Knillmann, S. Predicting low-concentration effects of
pesticides. Sci Rep 9, 15248 (2019).}
- Liess, M., Henz, S., Shahid, N., 2020. Modelling the synergistic effects of
- toxicant mixtures. Manuscript submitted for publication.
+ \href{https://doi.org/10.1186/s12302-020-00394-7}{Liess, M., Henz, S. &
+ Shahid, N. Modeling the synergistic effects of
+ toxicant mixtures. Environ Sci Eur 32, 119 (2020).}
}
\seealso{
Useful links:
--
GitLab