Updating documentation, DESCRIPTION, NAMESPACE, and README based on R…

… CRAN checks.

.Rbuildignore

@@ -6,3 +6,6 @@
 ^_pkgdown\.yml$
 ^docs$
 ^pkgdown$
+^dev$
+^doc$
+^Meta$

.gitignore

@@ -6,3 +6,5 @@
 .quarto
 docs
 inst/doc
+/doc/
+/Meta/

DESCRIPTION

@@ -1,29 +1,52 @@
 Package: ipd
 Title: Inference on Predicted Data
-Version: 0.0.0.9000
-Authors@R: 
-    person("First", "Last", , "[email protected]", role = c("aut", "cre"),
-           comment = c(ORCID = "YOUR-ORCID-ID"))
-Description: Peforms valid statistical inference on predicted data utilizing state-of-the-art methods. The package offers an all-encompassing wrapper function with specified defaults for ease of use and provides methods for tidying and summarizing results. 
+Version: 0.1.0
+Authors@R: c(
+      person(given = "Stephen", family = "Salerno",
+        email = "[email protected]", role = c("aut", "cre", "cph"),
+        comment = c(ORCID = "0000-0003-2763-0494")),
+      person(given = "Jiacheng", family = "Miao",
+        email = "[email protected]", role = c("aut")),
+      person(given = "Awan", family = "Afiaz",
+        email = "[email protected]", role = c("aut")),
+      person(given = "Kentaro", family = "Hoffman",
+        email = "[email protected]", role = c("aut")),
+      person(given = "Anna", family = "Neufeld",
+        email = "[email protected]", role = c("aut")),
+      person(given = "Qiongshi", family = "Lu",
+        email = "[email protected]", role = c("aut")),
+      person(given = "Tyler H", family = "McCormick",
+        email = "[email protected]", role = c("aut")),
+      person(given = "Jeffrey T", family = "Leek",
+        email = "[email protected]", role = c("aut")))
+Maintainer: Stephen Salerno <[email protected]>
+Description: Peforms valid statistical inference on predicted data (IPD) using recent methods, where for a subset of the data, the outcomes have been predicted by an algorithm. Provides a wrapper function with specified defaults for the type of model and method to be used for estimation and inference. Further provides methods for tidying and summarizing results. Salerno et al., (2024) <doi:10.48550/arXiv.2410.09665>.
 License: MIT + file LICENSE
-Encoding: UTF-8
-Roxygen: list(markdown = TRUE)
-RoxygenNote: 7.3.2
+LazyData: true
+URL: https://github.com/ipd-tools/ipd
+BugReports: https://github.com/ipd-tools/ipd/issues
+Depends: 
+    R (>= 3.5.0)
 Imports: 
     caret,
     gam,
+    generics,
     ranger,
+    splines,
     stats,
-    pspa,
-    generics
+    MASS,
+    randomForest
 Suggests: 
     knitr,
-    rmarkdown,
-    tidyverse,
     patchwork,
-    testthat (>= 3.0.0)
-Remotes: qlu-lab/pspa
+    rmarkdown,
+    spelling,
+    testthat (>= 3.0.0),
+    tidyverse
+VignetteBuilder: 
+    knitr
 Config/testthat/edition: 3
-URL: https://github.com/awanafiaz/ipd
-BugReports: https://github.com/awanafiaz/ipd/issues
-VignetteBuilder: knitr
+Encoding: UTF-8
+Roxygen: list(markdown = TRUE)
+RoxygenNote: 7.3.2
+Language: en-US

NAMESPACE

@@ -6,16 +6,25 @@ S3method(print,ipd)
 S3method(print,summary.ipd)
 S3method(summary,ipd)
 S3method(tidy,ipd)
+export(A)
+export(Sigma_cal)
 export(augment)
 export(calc_lhat_glm)
 export(compute_cdf)
 export(compute_cdf_diff)
+export(est_ini)
 export(glance)
 export(ipd)
+export(link_Hessian)
+export(link_grad)
 export(log1pexp)
 export(logistic_get_stats)
+export(mean_psi)
+export(mean_psi_pop)
 export(ols)
 export(ols_get_stats)
+export(optim_est)
+export(optim_weights)
 export(postpi_analytic_ols)
 export(postpi_boot_logistic)
 export(postpi_boot_ols)
@@ -31,21 +40,25 @@ export(ppi_plusplus_ols_est)
 export(ppi_plusplus_quantile)
 export(ppi_plusplus_quantile_est)
 export(ppi_quantile)
+export(psi)
 export(pspa_logistic)
 export(pspa_mean)
 export(pspa_ols)
 export(pspa_poisson)
 export(pspa_quantile)
+export(pspa_y)
 export(rectified_cdf)
 export(rectified_p_value)
+export(sim_data_y)
 export(simdat)
 export(tidy)
 export(wls)
 export(zconfint_generic)
 export(zstat_generic)
+import(MASS)
 import(caret)
 import(gam)
-import(pspa)
+import(randomForest)
 import(stats)
 importFrom(gam,gam)
 importFrom(generics,augment)