Run CVtreeMLEproc.time()-ptm#> user system elapsed
-#> 224.805 89.297 3099.137
+#> 333.788 139.464 4631.168
K Fold Results
diff --git a/docs/authors.html b/docs/authors.html
index e2f28d9..29da241 100644
--- a/docs/authors.html
+++ b/docs/authors.html
@@ -63,11 +63,11 @@
Citation
McCoy D (2024).
-IsoXshift: Semi-Parametric Identification and Estimation of Interaction using Stochastic Interventions.
+IsoXshift: Isobolic Identification and Estimation of Interaction using Stochastic Interventions.
R package version 1.0.1.
@Manual{,
- title = {IsoXshift: Semi-Parametric Identification and Estimation of Interaction using Stochastic Interventions},
+ title = {IsoXshift: Isobolic Identification and Estimation of Interaction using Stochastic Interventions},
author = {David McCoy},
year = {2024},
note = {R package version 1.0.1},
diff --git a/docs/contributing.html b/docs/contributing.html
index 7086ce6..d7663e1 100644
--- a/docs/contributing.html
+++ b/docs/contributing.html
@@ -47,7 +47,7 @@
Contributing to IsoXshift
-
+
We love your input! We want to make contributing to this project as easy and transparent as possible, whether it’s:
Reporting a bug
diff --git a/docs/index.html b/docs/index.html
index 9e39bf1..8a9a2c2 100644
--- a/docs/index.html
+++ b/docs/index.html
@@ -5,13 +5,13 @@
-Semi-Parametric Identification and Estimation of Interaction using Stochastic Interventions • IsoXshift
+Isobolic Identification and Estimation of Interaction using Stochastic Interventions • IsoXshift
-
+
@@ -86,37 +86,26 @@
Note: Because the IsoXshift package (currently) depends on sl3 that allows ensemble machine learning to be used for nuisance parameter estimation and sl3 is not on CRAN the IsoXshift package is not available on CRAN and must be downloaded here.
-
There are many depedencies for IsoXshift so it’s easier to break up installation of the various packages to ensure proper installation.
-
First install the basis estimators used in the data-adaptive variable discovery of the exposure and covariate space:
IsoXshift uses the sl3 package to build ensemble machine learners for each nuisance parameter. We have to install off the development branch, first download these two packages for sl3
To illustrate how IsoXshift may be used to ascertain the effect of a mixed exposure, we will use synthetic data from the National Institute of Environmental Health. Let’s first load the relevant packages:
We will directly use synthetic data from the NIEHS used to test new mixture methods. This data has built in strong positive and negative marginal effects and certain interactions. Found here: https://github.com/niehs-prime/2015-NIEHS-MIxtures-Workshop
Here we see that X1-X7 are found in 3 folds and X1-X5 are found in two folds as the most synergistic relationship. This means that, to get to our target outcome of 15, with precision up to 0.5, these two exposures are found to most efficiently get to our target outcome under minimal intervention. These interventions are:
Here this table shows the average exposed level for each exposure, the intervened level for both exposures, this is the level the exposures are set to which gets to the target outcome most efficiently, Avg Difference, is the average difference between the intervention and observed outcome (the “effort”), and Difference is the difference between the expected outcome under intervention and the target outcome.
To get more power, we do a pooled TMLE over our findings for the intervention with minimal effort that gets to our target outcome:
The contents of this repository are distributed under the MIT license. See below for details:
-
MIT License
-Copyright (c) 2020-2022 David B. McCoy
-Permission is hereby granted, free of charge, to any person obtaining a copy
-of this software and associated documentation files (the "Software"), to deal
-in the Software without restriction, including without limitation the rights
-to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
-copies of the Software, and to permit persons to whom the Software is
-furnished to do so, subject to the following conditions:
-The above copyright notice and this permission notice shall be included in all
-copies or substantial portions of the Software.
-THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
-IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
-FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
-AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
-LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
-OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
-SOFTWARE.
+
MIT License
+Copyright (c) 2020-2022 David B. McCoy
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.
diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml
index f5f0499..082822d 100644
--- a/docs/pkgdown.yml
+++ b/docs/pkgdown.yml
@@ -3,5 +3,5 @@ pkgdown: 2.0.6
pkgdown_sha: ~
articles:
intro_IsoXshift: intro_IsoXshift.html
-last_built: 2024-03-11T20:47Z
+last_built: 2024-03-29T02:19Z
diff --git a/docs/reference/figures/IsoXshift_sticker.png b/docs/reference/figures/IsoXshift_sticker.png
new file mode 100644
index 0000000..f88083d
Binary files /dev/null and b/docs/reference/figures/IsoXshift_sticker.png differ
diff --git a/docs/reference/integrand_q_r.html b/docs/reference/integrand_q_r.html
index 2d4ccbc..44f3cd9 100644
--- a/docs/reference/integrand_q_r.html
+++ b/docs/reference/integrand_q_r.html
@@ -1,5 +1,5 @@
-Integrand Function for Mediation Analysis in SuperNOVA: Works for both Adaptive Quadrature and MC Methods for Integration — integrand_q_r • IsoXshiftIntegrand Function for Mediation Analysis in IsoXshift: Works for both Adaptive Quadrature and MC Methods for Integration — integrand_q_r • IsoXshift
diff --git a/docs/reference/quad_integrand_q_g_r.html b/docs/reference/quad_integrand_q_g_r.html
index 6e5fc75..ff464db 100644
--- a/docs/reference/quad_integrand_q_g_r.html
+++ b/docs/reference/quad_integrand_q_g_r.html
@@ -1,5 +1,5 @@
-Integrand Function for Q, g, r Model Adaptive Quadrature Double Integration in SuperNOVA — quad_integrand_q_g_r • IsoXshiftIntegrand Function for Q, g, r Model Adaptive Quadrature Double Integration in IsoXshift — quad_integrand_q_g_r • IsoXshift
