From b59a79ad5075e8aa7f00fbcfc6b1515805a38433 Mon Sep 17 00:00:00 2001 From: Kristyn Pantoja Date: Mon, 21 Oct 2024 17:17:22 +0000 Subject: [PATCH 1/9] update ancova.rmd description (intro) --- R/ancova.qmd | 5 ++++- 1 file changed, 4 insertions(+), 1 deletion(-) diff --git a/R/ancova.qmd b/R/ancova.qmd index 789a838e4..a9459c335 100644 --- a/R/ancova.qmd +++ b/R/ancova.qmd @@ -52,7 +52,10 @@ my_formula <- as.formula(post ~ drug + pre) ## Introduction -In this example, we're looking at [Analysis of Covariance](https://documentation.sas.com/doc/en/pgmsascdc/9.4_3.4/statug/statug_glm_examples04.htm). ANCOVA is typically used to analyse treatment differences, to see examples of prediction models go to the [simple linear regression page](linear-regression.qmd). + +ANOVA is a statistical method used to compare the means of three or more groups to determine if at least one group mean is significantly different from the others. Please see the [anova.qmd](ANOVA page) for more information. ANCOVA is an extension to ANOVA. + +ANCOVA (Analysis of Covariance) is a statistical method that compares the means of two or more groups while controlling for one or more continuous covariates. By adjusting for these covariates, ANCOVA helps to reduce potential confounding effects, allowing for a clearer assessment of the main treatment effects. It assumes linear relationships between covariates and the dependent variable, along with normality and homogeneity of variances. ## Data Summary From 7a64dc1a81c8f0b19c9ca2744c7f00be912d0f27 Mon Sep 17 00:00:00 2001 From: Alanah Jonas Date: Mon, 21 Oct 2024 18:26:55 +0100 Subject: [PATCH 2/9] Update anova.qmd add a reference to sas file and rename --- SAS/anova.qmd | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/SAS/anova.qmd b/SAS/anova.qmd index 5863ebf4c..8387a2af6 100644 --- a/SAS/anova.qmd +++ b/SAS/anova.qmd @@ -1,5 +1,5 @@ --- -title: "linear-models" +title: "ANOVA" --- ### **Getting Started** @@ -60,3 +60,5 @@ knitr::include_graphics("../images/linear/sas-ss-type-3.png") ```{r, echo=FALSE, fig.align='center', out.width="75%"} knitr::include_graphics("../images/linear/sas-ss-type-4.png") ``` + +Reference: [Sum of squares type I, II, and III](http://dwoll.de/rexrepos/posts/anovaSStypes.html) From 6a6818bc9ccdca6bcc9bbe5093c554a5ac0542c6 Mon Sep 17 00:00:00 2001 From: SIT-WORLD Date: Mon, 21 Oct 2024 23:40:56 +0530 Subject: [PATCH 3/9] Update the introduction to ancova. --- R/ancova.qmd | 5 +- renv.lock | 2852 ++-------------------------------------------- requirements.txt | 126 -- 3 files changed, 90 insertions(+), 2893 deletions(-) diff --git a/R/ancova.qmd b/R/ancova.qmd index a9459c335..1c20e65d7 100644 --- a/R/ancova.qmd +++ b/R/ancova.qmd @@ -52,11 +52,12 @@ my_formula <- as.formula(post ~ drug + pre) ## Introduction - -ANOVA is a statistical method used to compare the means of three or more groups to determine if at least one group mean is significantly different from the others. Please see the [anova.qmd](ANOVA page) for more information. ANCOVA is an extension to ANOVA. +ANOVA is a statistical method used to compare the means of three or more groups to determine if at least one group mean is significantly different from the others. Please see the [anova.qmd](ANOVA%20page) for more information. ANCOVA is an extension to ANOVA. ANCOVA (Analysis of Covariance) is a statistical method that compares the means of two or more groups while controlling for one or more continuous covariates. By adjusting for these covariates, ANCOVA helps to reduce potential confounding effects, allowing for a clearer assessment of the main treatment effects. It assumes linear relationships between covariates and the dependent variable, along with normality and homogeneity of variances. +We follow the example from link \[Analysis of Covariance\](https://documentation.sas.com/doc/en/pgmsascdc/9.4_3.4/statug/statug_glm_examples04.htm) + ## Data Summary ```{r} diff --git a/renv.lock b/renv.lock index 9b9b35c94..fc49c3fd7 100644 --- a/renv.lock +++ b/renv.lock @@ -9,18 +9,11 @@ ] }, "Python": { - "Version": "3.12.6", + "Version": "3.11.2", "Type": "virtualenv", "Name": "./renv/python/virtualenvs/renv-python-3.12" }, "Packages": { - "BiasedUrn": { - "Package": "BiasedUrn", - "Version": "2.0.12", - "Source": "Repository", - "Repository": "CRAN", - "Hash": "496ed23cc1f5bea7ff369e7403aefd0b" - }, "DBI": { "Package": "DBI", "Version": "1.2.3", @@ -32,23 +25,6 @@ ], "Hash": "065ae649b05f1ff66bb0c793107508f5" }, - "DOS2": { - "Package": "DOS2", - "Version": "0.5.2", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "MASS", - "R", 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"praise", - "processx", - "ps", - "rlang", - "utils", - "waldo", - "withr" + "minqa", + "mitools", + "numDeriv", + "splines", + "stats", + "survival" ], - "Hash": "3f6e7e5e2220856ff865e4834766bf2b" + "Hash": "b29af45d3afe5f718e387688d43d71e6" }, - "textshaping": { - "Package": "textshaping", - "Version": "0.4.0", + "survival": { + "Package": "survival", + "Version": "3.5-8", "Source": "Repository", "Repository": "CRAN", "Requirements": [ + "Matrix", "R", - "cpp11", - "lifecycle", - "systemfonts" + "graphics", + "methods", + "splines", + "stats", + "utils" ], - "Hash": "5142f8bc78ed3d819d26461b641627ce" + "Hash": "184d7799bca4ba8c3be72ea396f4b9a3" }, "tibble": { "Package": "tibble", @@ -4110,60 +1793,6 @@ ], "Hash": "a84e2cc86d07289b3b6f5069df7a004c" }, - "tidycmprsk": { - "Package": "tidycmprsk", - "Version": "1.1.0", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "R", - "broom", - "cli", - "cmprsk", - "dplyr", - "ggplot2", - "gtsummary", - "hardhat", - "purrr", - "rlang", - "stringr", - "survival", - "tibble", - "tidyr" - ], - "Hash": "62e5e75e469d85b239d9548b04f80059" - }, - "tidymodels": { - "Package": "tidymodels", - "Version": "1.2.0", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "R", - "broom", - "cli", - "conflicted", - "dials", - "dplyr", - "ggplot2", - "hardhat", - "infer", - "modeldata", - "parsnip", - "purrr", - "recipes", - "rlang", - "rsample", - "rstudioapi", - "tibble", - "tidyr", - "tune", - "workflows", - "workflowsets", - "yardstick" - ], - "Hash": "c3296bbe8389a31fafc1ee07e69889a7" - }, "tidyr": { "Package": "tidyr", "Version": "1.3.1", @@ -4203,71 +1832,6 @@ ], "Hash": "829f27b9c4919c16b593794a6344d6c0" }, - "tidyverse": { - "Package": "tidyverse", - "Version": "2.0.0", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "R", - "broom", - "cli", - "conflicted", - "dbplyr", - "dplyr", - "dtplyr", - "forcats", - "ggplot2", - "googledrive", - "googlesheets4", - "haven", - "hms", - "httr", - "jsonlite", - "lubridate", - "magrittr", - "modelr", - "pillar", - "purrr", - "ragg", - "readr", - "readxl", - "reprex", - "rlang", - "rstudioapi", - "rvest", - "stringr", - "tibble", - "tidyr", - "xml2" - ], - "Hash": "c328568cd14ea89a83bd4ca7f54ae07e" - }, - "timeDate": { - "Package": "timeDate", - "Version": "4041.110", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "R", - "graphics", - "methods", - "stats", - "utils" - ], - "Hash": "c5e48e8ac24d4472ddb122bcdeb011ad" - }, - "timechange": { - "Package": "timechange", - "Version": "0.3.0", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "R", - "cpp11" - ], - "Hash": "c5f3c201b931cd6474d17d8700ccb1c8" - }, "tinytex": { "Package": "tinytex", "Version": "0.53", @@ -4278,40 +1842,6 @@ ], "Hash": "9db859e8aabbb474293dde3097839420" }, - "tune": { - "Package": "tune", - "Version": "1.2.1", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "GPfit", - "R", - "cli", - "dials", - "doFuture", - "dplyr", - "foreach", - "future", - "generics", - "ggplot2", - "glue", - "hardhat", - "lifecycle", - "parsnip", - "purrr", - "recipes", - "rlang", - "rsample", - "tibble", - "tidyr", - "tidyselect", - "vctrs", - "withr", - "workflows", - "yardstick" - ], - "Hash": "7fbdbcd58e7a63957b23ddb751b346af" - }, "tzdb": { "Package": "tzdb", "Version": "0.4.0", @@ -4323,16 +1853,6 @@ ], "Hash": "f561504ec2897f4d46f0c7657e488ae1" }, - "ucminf": { - "Package": "ucminf", - "Version": "1.2.2", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "R" - ], - "Hash": "e0750b911c01c3e5aaab143a86e9e478" - }, "utf8": { "Package": "utf8", "Version": "1.2.4", @@ -4343,58 +1863,6 @@ ], "Hash": "62b65c52671e6665f803ff02954446e9" }, - "uuid": { - "Package": "uuid", - "Version": "1.2-1", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "R" - ], - "Hash": "34e965e62a41fcafb1ca60e9b142085b" - }, - "vcd": { - "Package": "vcd", - "Version": "1.4-13", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "MASS", - "R", - "colorspace", - "grDevices", - "grid", - "lmtest", - "stats", - "utils" - ], - "Hash": "c371981692e15016fd45aa5cf8f9b42c" - }, - "vcdExtra": { - "Package": "vcdExtra", - "Version": "0.8-5", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "MASS", - "R", - "ca", - "dplyr", - "glue", - "gnm", - "grDevices", - "grid", - "here", - "purrr", - "readxl", - "stats", - "stringr", - "tidyr", - "utils", - "vcd" - ], - "Hash": "7ebe6d6014b03ab83b51e5e8a914db88" - }, "vctrs": { "Package": "vctrs", "Version": "0.6.5", @@ -4458,33 +1926,6 @@ ], "Hash": "390f9315bc0025be03012054103d227c" }, - "waldo": { - "Package": "waldo", - "Version": "0.5.3", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "R", - "cli", - "diffobj", - "glue", - "methods", - "rematch2", - "rlang", - "tibble" - ], - "Hash": "16aa934a49658677d8041df9017329b9" - }, - "warp": { - "Package": "warp", - "Version": "0.2.1", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "R" - ], - "Hash": "fea474d578b1cbcb696ae6ac8bdcc439" - }, "withr": { "Package": "withr", "Version": "3.0.1", @@ -4497,56 +1938,6 @@ ], "Hash": "07909200e8bbe90426fbfeb73e1e27aa" }, - "workflows": { - "Package": "workflows", - "Version": "1.1.4", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "R", - "cli", - "generics", - "glue", - "hardhat", - "lifecycle", - "modelenv", - "parsnip", - "rlang", - "tidyselect", - "vctrs" - ], - "Hash": "f2c2cefdf6babfed4594b33479d19fc3" - }, - "workflowsets": { - "Package": "workflowsets", - "Version": "1.1.0", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "R", - "cli", - "dplyr", - "generics", - "ggplot2", - "glue", - "hardhat", - "lifecycle", - "parsnip", - "pillar", - "prettyunits", - "purrr", - "rlang", - "rsample", - "stats", - "tibble", - "tidyr", - "tune", - "vctrs", - "withr", - "workflows" - ], - "Hash": "ff4540bb4cccc1dd2447d58a97158820" - }, "xfun": { "Package": "xfun", "Version": "0.48", @@ -4560,20 +1951,6 @@ ], "Hash": "89e455b87c84e227eb7f60a1b4e5fe1f" }, - "xgboost": { - "Package": "xgboost", - "Version": "1.7.8.1", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "Matrix", - "R", - "data.table", - "jsonlite", - "methods" - ], - "Hash": "f7aa70849f72103d78c99df10eae6164" - }, "xml2": { "Package": "xml2", "Version": "1.3.6", @@ -4587,67 +1964,12 @@ ], "Hash": "1d0336142f4cd25d8d23cd3ba7a8fb61" }, - "xtable": { - "Package": "xtable", - "Version": "1.8-4", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "R", - "stats", - "utils" - ], - "Hash": "b8acdf8af494d9ec19ccb2481a9b11c2" - }, "yaml": { "Package": "yaml", "Version": "2.3.10", "Source": "Repository", "Repository": "CRAN", "Hash": "51dab85c6c98e50a18d7551e9d49f76c" - }, - "yardstick": { - "Package": "yardstick", - "Version": "1.3.1", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "R", - "cli", - "dplyr", - "generics", - "hardhat", - "lifecycle", - "rlang", - "tibble", - "tidyselect", - "utils", - "vctrs", - "withr" - ], - "Hash": "9ce4117141b326c4fffc7c42e56e0f88" - }, - "zip": { - "Package": "zip", - "Version": "2.3.1", - "Source": "Repository", - "Repository": "CRAN", - "Hash": "fcc4bd8e6da2d2011eb64a5e5cc685ab" - }, - "zoo": { - "Package": "zoo", - "Version": "1.8-12", - "Source": "Repository", - "Repository": "CRAN", - "Requirements": [ - "R", - "grDevices", - "graphics", - "lattice", - "stats", - "utils" - ], - "Hash": "5c715954112b45499fb1dadc6ee6ee3e" } } } diff --git a/requirements.txt b/requirements.txt index 656c3c4f0..e69de29bb 100644 --- a/requirements.txt +++ b/requirements.txt @@ -1,126 +0,0 @@ -anyio==4.3.0 -appnope==0.1.4 -argon2-cffi==23.1.0 -argon2-cffi-bindings==21.2.0 -arrow==1.3.0 -asttokens==2.4.1 -async-lru==2.0.4 -attrs==23.2.0 -Babel==2.14.0 -beautifulsoup4==4.12.3 -bleach==6.1.0 -certifi==2024.2.2 -cffi==1.16.0 -charset-normalizer==3.3.2 -colorama==0.4.6 -comm==0.2.2 -contourpy==1.2.1 -cycler==0.12.1 -debugpy==1.8.1 -decorator==5.1.1 -defusedxml==0.7.1 -exceptiongroup==1.2.0 -executing==2.0.1 -fastjsonschema==2.19.1 -fonttools==4.53.1 -fqdn==1.5.1 -h11==0.14.0 -httpcore==1.0.5 -httpx==0.27.0 -idna==3.6 -importlib_metadata==7.1.0 -ipykernel==6.29.4 -ipython==8.18.1 -ipywidgets==8.1.2 -isoduration==20.11.0 -jedi==0.19.1 -Jinja2==3.1.3 -joblib==1.4.2 -json5==0.9.24 -jsonpointer==2.4 -jsonschema==4.21.1 -jsonschema-specifications==2023.12.1 -jupyter==1.0.0 -jupyter-console==6.6.3 -jupyter-events==0.10.0 -jupyter-lsp==2.2.5 -jupyter_client==8.6.1 -jupyter_core==5.7.2 -jupyter_server==2.13.0 -jupyter_server_terminals==0.5.3 -jupyterlab==4.1.6 -jupyterlab_pygments==0.3.0 -jupyterlab_server==2.26.0 -jupyterlab_widgets==3.0.10 -kiwisolver==1.4.5 -MarkupSafe==2.1.5 -matplotlib==3.9.2 -matplotlib-inline==0.1.6 -mistune==3.0.2 -nbclient==0.10.0 -nbconvert==7.16.3 -nbformat==5.10.4 -nest-asyncio==1.6.0 -notebook==7.1.2 -notebook_shim==0.2.4 -numpy==2.0.1 -overrides==7.7.0 -packaging==24.0 -pandas==2.2.2 -pandocfilters==1.5.1 -parso==0.8.4 -patsy==0.5.6 -pexpect==4.9.0 -pillow==10.4.0 -platformdirs==4.2.0 -polars==1.4.1 -prometheus_client==0.20.0 -prompt-toolkit==3.0.43 -psutil==5.9.8 -ptyprocess==0.7.0 -pure-eval==0.2.2 -pyarrow==17.0.0 -pycparser==2.22 -Pygments==2.17.2 -pyparsing==3.1.2 -python-dateutil==2.9.0.post0 -python-json-logger==2.0.7 -pytz==2024.1 -PyYAML==6.0.1 -pyzmq==25.1.2 -qtconsole==5.5.1 -QtPy==2.4.1 -referencing==0.34.0 -requests==2.31.0 -rfc3339-validator==0.1.4 -rfc3986-validator==0.1.1 -rpds-py==0.18.0 -samplics==0.4.22 -scikit-learn==1.5.1 -scipy==1.14.0 -Send2Trash==1.8.3 -setuptools==72.2.0 -six==1.16.0 -sniffio==1.3.1 -soupsieve==2.5 -stack-data==0.6.3 -statsmodels==0.14.2 -tabulate==0.9.0 -terminado==0.18.1 -threadpoolctl==3.5.0 -tinycss2==1.2.1 -tomli==2.0.1 -tornado==6.4 -traitlets==5.14.2 -types-python-dateutil==2.9.0.20240316 -typing_extensions==4.11.0 -tzdata==2024.1 -uri-template==1.3.0 -urllib3==2.2.1 -wcwidth==0.2.13 -webcolors==1.13 -webencodings==0.5.1 -websocket-client==1.7.0 -wheel==0.44.0 -widgetsnbextension==4.0.10 -zipp==3.18.1 From f854481c5e24df2055d2e4b5687d4a48bddcc4f7 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Gigi=F0=9F=8C=BB?= Date: Mon, 21 Oct 2024 19:48:22 +0100 Subject: [PATCH 4/9] Added documentation link to the SAS reference for skewness --- SAS/summary_skew_kurt.qmd | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/SAS/summary_skew_kurt.qmd b/SAS/summary_skew_kurt.qmd index 5b1722cb3..ff48cb188 100644 --- a/SAS/summary_skew_kurt.qmd +++ b/SAS/summary_skew_kurt.qmd @@ -48,7 +48,7 @@ The following shows the SAS documentation for the two measures. ### Skewness -The SAS documentation for Skewness is provided here for convenience: +The [SAS documentation for Skewness](https://documentation.sas.com/doc/en/vdmmlcdc/8.1/casfedsql/p04x27b92gon3gn10e5y5ybxbvmi.htm) is provided here for convenience: ```{r, echo=FALSE, fig.align='center', out.width="100%"} knitr::include_graphics("../images/summarystats/sas_skewness.png") ``` From 93cf054bae8a3f1961ee4d7d68b038f01506371b Mon Sep 17 00:00:00 2001 From: Alanah Jonas <156101954+alanahjonas95@users.noreply.github.com> Date: Mon, 21 Oct 2024 19:59:23 +0100 Subject: [PATCH 5/9] Delete requirements.txt --- requirements.txt | 0 1 file changed, 0 insertions(+), 0 deletions(-) delete mode 100644 requirements.txt diff --git a/requirements.txt b/requirements.txt deleted file mode 100644 index e69de29bb..000000000 From ba1dcfd29250be3c68a97b929c84417a547dcdb3 Mon Sep 17 00:00:00 2001 From: Alanah Jonas Date: Mon, 21 Oct 2024 20:03:59 +0100 Subject: [PATCH 6/9] Create requirements.txt --- requirements.txt | 126 +++++++++++++++++++++++++++++++++++++++++++++++ 1 file changed, 126 insertions(+) create mode 100644 requirements.txt diff --git a/requirements.txt b/requirements.txt new file mode 100644 index 000000000..3c19a1021 --- /dev/null +++ b/requirements.txt @@ -0,0 +1,126 @@ +anyio==4.3.0 +appnope==0.1.4 +argon2-cffi==23.1.0 +argon2-cffi-bindings==21.2.0 +arrow==1.3.0 +asttokens==2.4.1 +async-lru==2.0.4 +attrs==23.2.0 +Babel==2.14.0 +beautifulsoup4==4.12.3 +bleach==6.1.0 +certifi==2024.2.2 +cffi==1.16.0 +charset-normalizer==3.3.2 +colorama==0.4.6 +comm==0.2.2 +contourpy==1.2.1 +cycler==0.12.1 +debugpy==1.8.1 +decorator==5.1.1 +defusedxml==0.7.1 +exceptiongroup==1.2.0 +executing==2.0.1 +fastjsonschema==2.19.1 +fonttools==4.53.1 +fqdn==1.5.1 +h11==0.14.0 +httpcore==1.0.5 +httpx==0.27.0 +idna==3.6 +importlib_metadata==7.1.0 +ipykernel==6.29.4 +ipython==8.18.1 +ipywidgets==8.1.2 +isoduration==20.11.0 +jedi==0.19.1 +Jinja2==3.1.3 +joblib==1.4.2 +json5==0.9.24 +jsonpointer==2.4 +jsonschema==4.21.1 +jsonschema-specifications==2023.12.1 +jupyter==1.0.0 +jupyter-console==6.6.3 +jupyter-events==0.10.0 +jupyter-lsp==2.2.5 +jupyter_client==8.6.1 +jupyter_core==5.7.2 +jupyter_server==2.13.0 +jupyter_server_terminals==0.5.3 +jupyterlab==4.1.6 +jupyterlab_pygments==0.3.0 +jupyterlab_server==2.26.0 +jupyterlab_widgets==3.0.10 +kiwisolver==1.4.5 +MarkupSafe==2.1.5 +matplotlib==3.9.2 +matplotlib-inline==0.1.6 +mistune==3.0.2 +nbclient==0.10.0 +nbconvert==7.16.3 +nbformat==5.10.4 +nest-asyncio==1.6.0 +notebook==7.1.2 +notebook_shim==0.2.4 +numpy==2.0.1 +overrides==7.7.0 +packaging==24.0 +pandas==2.2.2 +pandocfilters==1.5.1 +parso==0.8.4 +patsy==0.5.6 +pexpect==4.9.0 +pillow==10.4.0 +platformdirs==4.2.0 +polars==1.4.1 +prometheus_client==0.20.0 +prompt-toolkit==3.0.43 +psutil==5.9.8 +ptyprocess==0.7.0 +pure-eval==0.2.2 +pyarrow==17.0.0 +pycparser==2.22 +Pygments==2.17.2 +pyparsing==3.1.2 +python-dateutil==2.9.0.post0 +python-json-logger==2.0.7 +pytz==2024.1 +PyYAML==6.0.1 +pyzmq==25.1.2 +qtconsole==5.5.1 +QtPy==2.4.1 +referencing==0.34.0 +requests==2.31.0 +rfc3339-validator==0.1.4 +rfc3986-validator==0.1.1 +rpds-py==0.18.0 +samplics==0.4.22 +scikit-learn==1.5.1 +scipy==1.14.0 +Send2Trash==1.8.3 +setuptools==72.2.0 +six==1.16.0 +sniffio==1.3.1 +soupsieve==2.5 +stack-data==0.6.3 +statsmodels==0.14.2 +tabulate==0.9.0 +terminado==0.18.1 +threadpoolctl==3.5.0 +tinycss2==1.2.1 +tomli==2.0.1 +tornado==6.4 +traitlets==5.14.2 +types-python-dateutil==2.9.0.20240316 +typing_extensions==4.11.0 +tzdata==2024.1 +uri-template==1.3.0 +urllib3==2.2.1 +wcwidth==0.2.13 +webcolors==1.13 +webencodings==0.5.1 +websocket-client==1.7.0 +wheel==0.44.0 +widgetsnbextension==4.0.10 +zipp==3.18.1 \ No newline at end of file From 3222551ce06ff9a82467a9548ef0f01fdcc730f9 Mon Sep 17 00:00:00 2001 From: Alanah Jonas Date: Mon, 21 Oct 2024 20:05:54 +0100 Subject: [PATCH 7/9] Update renv.lock --- renv.lock | 502 +++++++++++++++++++++++++++++++++++++++++++++++++++++- 1 file changed, 501 insertions(+), 1 deletion(-) diff --git a/renv.lock b/renv.lock index fc49c3fd7..b9f23889a 100644 --- a/renv.lock +++ b/renv.lock @@ -243,6 +243,16 @@ ], "Hash": "2288423bb0f20a457800d7fc47f6aa54" }, + "askpass": { + "Package": "askpass", + "Version": "1.2.1", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "sys" + ], + "Hash": "c39f4155b3ceb1a9a2799d700fbd4b6a" + }, "backports": { "Package": "backports", "Version": "1.5.0", @@ -304,6 +314,18 @@ "Repository": "CRAN", "Hash": "d972ef991d58c19e6efa71b21f5e144b" }, + "blob": { + "Package": "blob", + "Version": "1.2.4", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "methods", + "rlang", + "vctrs" + ], + "Hash": "40415719b5a479b87949f3aa0aee737c" + }, "boot": { "Package": "boot", "Version": "1.3-30", @@ -369,6 +391,19 @@ ], "Hash": "cd9a672193789068eb5a2aad65a0dedf" }, + "callr": { + "Package": "callr", + "Version": "3.7.6", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "R6", + "processx", + "utils" + ], + "Hash": "d7e13f49c19103ece9e58ad2d83a7354" + }, "car": { "Package": "car", "Version": "3.1-3", @@ -404,6 +439,18 @@ ], "Hash": "ac6cdb8552c61bd36b0e54d07cf2aab7" }, + "cellranger": { + "Package": "cellranger", + "Version": "1.1.0", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "rematch", + "tibble" + ], + "Hash": "f61dbaec772ccd2e17705c1e872e9e7c" + }, "cli": { "Package": "cli", "Version": "3.6.3", @@ -460,6 +507,19 @@ "Repository": "CRAN", "Hash": "14eb0596f987c71535d07c3aff814742" }, + "conflicted": { + "Package": "conflicted", + "Version": "1.2.0", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cli", + "memoise", + "rlang" + ], + "Hash": "bb097fccb22d156624fd07cd2894ddb6" + }, "corrplot": { "Package": "corrplot", "Version": "0.95", @@ -529,6 +589,45 @@ ], "Hash": "d91263322a58af798f6cf3b13fd56dde" }, + "data.table": { + "Package": "data.table", + "Version": "1.16.2", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "methods" + ], + "Hash": "2e00b378fc3be69c865120d9f313039a" + }, + "dbplyr": { + "Package": "dbplyr", + "Version": "2.5.0", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "DBI", + "R", + "R6", + "blob", + "cli", + "dplyr", + "glue", + "lifecycle", + "magrittr", + "methods", + "pillar", + "purrr", + "rlang", + "tibble", + "tidyr", + "tidyselect", + "utils", + "vctrs", + "withr" + ], + "Hash": "39b2e002522bfd258039ee4e889e0fd1" + }, "dendextend": { "Package": "dendextend", "Version": "1.18.1", @@ -603,6 +702,25 @@ ], "Hash": "fedd9d00c2944ff00a0e2696ccf048ec" }, + "dtplyr": { + "Package": "dtplyr", + "Version": "1.3.1", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cli", + "data.table", + "dplyr", + "glue", + "lifecycle", + "rlang", + "tibble", + "tidyselect", + "vctrs" + ], + "Hash": "54ed3ea01b11e81a86544faaecfef8e2" + }, "ellipse": { "Package": "ellipse", "Version": "0.5.0", @@ -722,6 +840,22 @@ ], "Hash": "c2efdd5f0bcd1ea861c2d4e2a883a67d" }, + "forcats": { + "Package": "forcats", + "Version": "1.0.0", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cli", + "glue", + "lifecycle", + "magrittr", + "rlang", + "tibble" + ], + "Hash": "1a0a9a3d5083d0d573c4214576f1e690" + }, "fs": { "Package": "fs", "Version": "1.6.4", @@ -733,6 +867,28 @@ ], "Hash": "15aeb8c27f5ea5161f9f6a641fafd93a" }, + "gargle": { + "Package": "gargle", + "Version": "1.5.2", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cli", + "fs", + "glue", + "httr", + "jsonlite", + "lifecycle", + "openssl", + "rappdirs", + "rlang", + "stats", + "utils", + "withr" + ], + "Hash": "fc0b272e5847c58cd5da9b20eedbd026" + }, "generics": { "Package": "generics", "Version": "0.1.3", @@ -848,6 +1004,59 @@ ], "Hash": "5899f1eaa825580172bb56c08266f37c" }, + "googledrive": { + "Package": "googledrive", + "Version": "2.1.1", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cli", + "gargle", + "glue", + "httr", + "jsonlite", + "lifecycle", + "magrittr", + "pillar", + "purrr", + "rlang", + "tibble", + "utils", + "uuid", + "vctrs", + "withr" + ], + "Hash": "e99641edef03e2a5e87f0a0b1fcc97f4" + }, + "googlesheets4": { + "Package": "googlesheets4", + "Version": "1.1.1", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cellranger", + "cli", + "curl", + "gargle", + "glue", + "googledrive", + "httr", + "ids", + "lifecycle", + "magrittr", + "methods", + "purrr", + "rematch2", + "rlang", + "tibble", + "utils", + "vctrs", + "withr" + ], + "Hash": "d6db1667059d027da730decdc214b959" + }, "gridExtra": { "Package": "gridExtra", "Version": "2.3", @@ -907,6 +1116,27 @@ ], "Hash": "e18861963cbc65a27736e02b3cd3c4a0" }, + "haven": { + "Package": "haven", + "Version": "2.5.4", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cli", + "cpp11", + "forcats", + "hms", + "lifecycle", + "methods", + "readr", + "rlang", + "tibble", + "tidyselect", + "vctrs" + ], + "Hash": "9171f898db9d9c4c1b2c745adc2c1ef1" + }, "here": { "Package": "here", "Version": "1.0.1", @@ -988,6 +1218,32 @@ ], "Hash": "d55aa087c47a63ead0f6fc10f8fa1ee0" }, + "httr": { + "Package": "httr", + "Version": "1.4.7", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "R6", + "curl", + "jsonlite", + "mime", + "openssl" + ], + "Hash": "ac107251d9d9fd72f0ca8049988f1d7f" + }, + "ids": { + "Package": "ids", + "Version": "1.0.1", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "openssl", + "uuid" + ], + "Hash": "99df65cfef20e525ed38c3d2577f7190" + }, "isoband": { "Package": "isoband", "Version": "0.2.7", @@ -1138,6 +1394,19 @@ ], "Hash": "16a08fc75007da0d08e0c0388c7c33e6" }, + "lubridate": { + "Package": "lubridate", + "Version": "1.9.3", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "generics", + "methods", + "timechange" + ], + "Hash": "680ad542fbcf801442c83a6ac5a2126c" + }, "magrittr": { "Package": "magrittr", "Version": "2.0.3", @@ -1326,6 +1595,16 @@ ], "Hash": "df58958f293b166e4ab885ebcad90e02" }, + "openssl": { + "Package": "openssl", + "Version": "2.2.2", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "askpass" + ], + "Hash": "d413e0fef796c9401a4419485f709ca1" + }, "pbkrtest": { "Package": "pbkrtest", "Version": "0.5.3", @@ -1413,6 +1692,19 @@ ], "Hash": "6b01fc98b1e86c4f705ce9dcfd2f57c7" }, + "processx": { + "Package": "processx", + "Version": "3.8.4", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "R6", + "ps", + "utils" + ], + "Hash": "0c90a7d71988856bad2a2a45dd871bb9" + }, "progress": { "Package": "progress", "Version": "1.2.3", @@ -1443,6 +1735,17 @@ ], "Hash": "434cd5388a3979e74be5c219bcd6e77d" }, + "ps": { + "Package": "ps", + "Version": "1.8.0", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "utils" + ], + "Hash": "4b9c8485b0c7eecdf0a9ba5132a45576" + }, "purrr": { "Package": "purrr", "Version": "1.0.2", @@ -1476,6 +1779,17 @@ ], "Hash": "017561f17632c065388b7062da030952" }, + "ragg": { + "Package": "ragg", + "Version": "1.3.3", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "systemfonts", + "textshaping" + ], + "Hash": "0595fe5e47357111f29ad19101c7d271" + }, "rappdirs": { "Package": "rappdirs", "Version": "0.3.3", @@ -1534,6 +1848,38 @@ ], "Hash": "9de96463d2117f6ac49980577939dfb3" }, + "readxl": { + "Package": "readxl", + "Version": "1.4.3", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cellranger", + "cpp11", + "progress", + "tibble", + "utils" + ], + "Hash": "8cf9c239b96df1bbb133b74aef77ad0a" + }, + "rematch": { + "Package": "rematch", + "Version": "2.0.0", + "Source": "Repository", + "Repository": "CRAN", + "Hash": "cbff1b666c6fa6d21202f07e2318d4f1" + }, + "rematch2": { + "Package": "rematch2", + "Version": "2.1.2", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "tibble" + ], + "Hash": "76c9e04c712a05848ae7a23d2f170a40" + }, "renv": { "Package": "renv", "Version": "1.0.10", @@ -1544,6 +1890,28 @@ ], "Hash": "d0387d5687ec933dd7587efd4cfa2d85" }, + "reprex": { + "Package": "reprex", + "Version": "2.1.1", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "callr", + "cli", + "clipr", + "fs", + "glue", + "knitr", + "lifecycle", + "rlang", + "rmarkdown", + "rstudioapi", + "utils", + "withr" + ], + "Hash": "97b1d5361a24d9fb588db7afe3e5bcbf" + }, "reshape2": { "Package": "reshape2", "Version": "1.4.4", @@ -1646,6 +2014,32 @@ ], "Hash": "5045fbb71b143878d8c51975d1d7d56d" }, + "rstudioapi": { + "Package": "rstudioapi", + "Version": "0.17.0", + "Source": "Repository", + "Repository": "CRAN", + "Hash": "fb9f5fce8f609e9b66f0bea5c783f88a" + }, + "rvest": { + "Package": "rvest", + "Version": "1.0.4", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cli", + "glue", + "httr", + "lifecycle", + "magrittr", + "rlang", + "selectr", + "tibble", + "xml2" + ], + "Hash": "0bcf0c6f274e90ea314b812a6d19a519" + }, "sasLM": { "Package": "sasLM", "Version": "0.10.5", @@ -1705,6 +2099,19 @@ ], "Hash": "10ee4b91ec812690bd55d9bf51edccee" }, + "selectr": { + "Package": "selectr", + "Version": "0.4-2", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "R6", + "methods", + "stringr" + ], + "Hash": "3838071b66e0c566d55cc26bd6e27bf4" + }, "stringi": { "Package": "stringi", "Version": "1.8.4", @@ -1774,6 +2181,38 @@ ], "Hash": "184d7799bca4ba8c3be72ea396f4b9a3" }, + "sys": { + "Package": "sys", + "Version": "3.4.3", + "Source": "Repository", + "Repository": "CRAN", + "Hash": "de342ebfebdbf40477d0758d05426646" + }, + "systemfonts": { + "Package": "systemfonts", + "Version": "1.1.0", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cpp11", + "lifecycle" + ], + "Hash": "213b6b8ed5afbf934843e6c3b090d418" + }, + "textshaping": { + "Package": "textshaping", + "Version": "0.4.0", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cpp11", + "lifecycle", + "systemfonts" + ], + "Hash": "5142f8bc78ed3d819d26461b641627ce" + }, "tibble": { "Package": "tibble", "Version": "3.2.1", @@ -1832,6 +2271,57 @@ ], "Hash": "829f27b9c4919c16b593794a6344d6c0" }, + "tidyverse": { + "Package": "tidyverse", + "Version": "2.0.0", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "broom", + "cli", + "conflicted", + "dbplyr", + "dplyr", + "dtplyr", + "forcats", + "ggplot2", + "googledrive", + "googlesheets4", + "haven", + "hms", + "httr", + "jsonlite", + "lubridate", + "magrittr", + "modelr", + "pillar", + "purrr", + "ragg", + "readr", + "readxl", + "reprex", + "rlang", + "rstudioapi", + "rvest", + "stringr", + "tibble", + "tidyr", + "xml2" + ], + "Hash": "c328568cd14ea89a83bd4ca7f54ae07e" + }, + "timechange": { + "Package": "timechange", + "Version": "0.3.0", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cpp11" + ], + "Hash": "c5f3c201b931cd6474d17d8700ccb1c8" + }, "tinytex": { "Package": "tinytex", "Version": "0.53", @@ -1863,6 +2353,16 @@ ], "Hash": "62b65c52671e6665f803ff02954446e9" }, + "uuid": { + "Package": "uuid", + "Version": "1.2-1", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R" + ], + "Hash": "34e965e62a41fcafb1ca60e9b142085b" + }, "vctrs": { "Package": "vctrs", "Version": "0.6.5", @@ -1972,4 +2472,4 @@ "Hash": "51dab85c6c98e50a18d7551e9d49f76c" } } -} +} \ No newline at end of file From ba374b022c2802d5b6da18880469e6ce70d43ca1 Mon Sep 17 00:00:00 2001 From: Alanah Jonas Date: Mon, 21 Oct 2024 20:07:22 +0100 Subject: [PATCH 8/9] Update renv.lock --- renv.lock | 2266 +++++++++++++++++++++++++++++++++++++++++++++++++++-- 1 file changed, 2222 insertions(+), 44 deletions(-) diff --git a/renv.lock b/renv.lock index b9f23889a..333ec675e 100644 --- a/renv.lock +++ b/renv.lock @@ -9,11 +9,18 @@ ] }, "Python": { - "Version": "3.11.2", + "Version": "3.12.6", "Type": "virtualenv", "Name": "./renv/python/virtualenvs/renv-python-3.12" }, "Packages": { + "BiasedUrn": { + "Package": "BiasedUrn", + "Version": "2.0.12", + "Source": "Repository", + "Repository": "CRAN", + "Hash": "496ed23cc1f5bea7ff369e7403aefd0b" + }, "DBI": { "Package": "DBI", "Version": "1.2.3", @@ -25,6 +32,23 @@ ], "Hash": "065ae649b05f1ff66bb0c793107508f5" }, + "DOS2": { + "Package": "DOS2", + "Version": "0.5.2", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "MASS", + "R", + "graphics", + "sensitivity2x2xk", + "sensitivitymult", + "sensitivitymv", + "senstrat", + "stats" + ], + "Hash": "ef663074ef3fef2e68c4c77274372e51" + }, "DT": { "Package": "DT", "Version": "0.33", @@ -52,6 +76,59 @@ ], "Hash": "cd52c065c9e687c60c56b51f10f7bcd3" }, + "DescTools": { + "Package": "DescTools", + "Version": "0.99.57", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "Exact", + "MASS", + "R", + "Rcpp", + "base", + "boot", + "cli", + "data.table", + "expm", + "gld", + "grDevices", + "graphics", + "httr", + "methods", + "mvtnorm", + "readxl", + "rstudioapi", + "stats", + "utils", + "withr" + ], + "Hash": "3cdd73c0534df2123efc25236ec23295" + }, + "DiceDesign": { + "Package": "DiceDesign", + "Version": "1.10", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R" + ], + "Hash": "ac8b12951882c375d1a14f64c93e78f1" + }, + "Exact": { + "Package": "Exact", + "Version": "3.3", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "graphics", + "rootSolve", + "stats", + "utils" + ], + "Hash": "72eeb792b6ae3bef92624916c328bcff" + }, "FactoMineR": { "Package": "FactoMineR", "Version": "2.11", @@ -90,6 +167,46 @@ ], "Hash": "7a29697b75e027767a53fde6c903eca7" }, + "GPfit": { + "Package": "GPfit", + "Version": "1.0-8", + "Source": "Repository", + 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"R", + "stringi", + "stringr" + ], + "Hash": "58767e44739b76965332e8a4fe3f91f1" }, "stringi": { "Package": "stringi", @@ -2142,6 +3941,29 @@ ], "Hash": "960e2ae9e09656611e0b8214ad543207" }, + "survMisc": { + "Package": "survMisc", + "Version": "0.5.6", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "KMsurv", + "data.table", + "ggplot2", + "grDevices", + "graphics", + "grid", + "gridExtra", + "km.ci", + "knitr", + "stats", + "survival", + "utils", + "xtable", + "zoo" + ], + "Hash": "2367feed5d6f99ee1e380da3eac55ab6" + }, "survey": { "Package": "survey", "Version": "4.4-2", @@ -2167,7 +3989,7 @@ }, "survival": { "Package": "survival", - "Version": "3.5-8", + "Version": "3.7-0", "Source": "Repository", "Repository": "CRAN", "Requirements": [ @@ -2179,7 +4001,34 @@ "stats", "utils" ], - "Hash": "184d7799bca4ba8c3be72ea396f4b9a3" + "Hash": "5aaa9cbaf4aba20f8e06fdea1850a398" + }, + "survminer": { + "Package": "survminer", + "Version": "0.4.9", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "broom", + "dplyr", + "ggplot2", + "ggpubr", + "ggtext", + "grid", + "gridExtra", + "magrittr", + "maxstat", + "methods", + "purrr", + "rlang", + "scales", + "stats", + "survMisc", + "survival", + "tibble", + "tidyr" + ], + "Hash": "3f29f006a8eb499eff91d8b72325756e" }, "sys": { "Package": "sys", @@ -2200,6 +4049,35 @@ ], "Hash": "213b6b8ed5afbf934843e6c3b090d418" }, + "testthat": { + "Package": "testthat", + "Version": "3.2.1.1", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "R6", + "brio", + "callr", + "cli", + "desc", + "digest", + "evaluate", + "jsonlite", + "lifecycle", + "magrittr", + "methods", + "pkgload", + "praise", + "processx", + "ps", + "rlang", + "utils", + "waldo", + "withr" + ], + "Hash": "3f6e7e5e2220856ff865e4834766bf2b" + }, "textshaping": { "Package": "textshaping", "Version": "0.4.0", @@ -2232,6 +4110,60 @@ ], "Hash": "a84e2cc86d07289b3b6f5069df7a004c" }, + "tidycmprsk": { + "Package": "tidycmprsk", + "Version": "1.1.0", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "broom", + "cli", + "cmprsk", + "dplyr", + "ggplot2", + "gtsummary", + "hardhat", + "purrr", + "rlang", + "stringr", + "survival", + "tibble", + "tidyr" + ], + "Hash": "62e5e75e469d85b239d9548b04f80059" + }, + "tidymodels": { + "Package": "tidymodels", + "Version": "1.2.0", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "broom", + "cli", + "conflicted", + "dials", + "dplyr", + "ggplot2", + "hardhat", + "infer", + "modeldata", + "parsnip", + "purrr", + "recipes", + "rlang", + "rsample", + "rstudioapi", + "tibble", + "tidyr", + "tune", + "workflows", + "workflowsets", + "yardstick" + ], + "Hash": "c3296bbe8389a31fafc1ee07e69889a7" + }, "tidyr": { "Package": "tidyr", "Version": "1.3.1", @@ -2311,6 +4243,20 @@ ], "Hash": "c328568cd14ea89a83bd4ca7f54ae07e" }, + "timeDate": { + "Package": "timeDate", + "Version": "4041.110", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "graphics", + "methods", + "stats", + "utils" + ], + "Hash": "c5e48e8ac24d4472ddb122bcdeb011ad" + }, "timechange": { "Package": "timechange", "Version": "0.3.0", @@ -2332,6 +4278,40 @@ ], "Hash": "9db859e8aabbb474293dde3097839420" }, + "tune": { + "Package": "tune", + "Version": "1.2.1", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "GPfit", + "R", + "cli", + "dials", + "doFuture", + "dplyr", + "foreach", + "future", + "generics", + "ggplot2", + "glue", + "hardhat", + "lifecycle", + "parsnip", + "purrr", + "recipes", + "rlang", + "rsample", + "tibble", + "tidyr", + "tidyselect", + "vctrs", + "withr", + "workflows", + "yardstick" + ], + "Hash": "7fbdbcd58e7a63957b23ddb751b346af" + }, "tzdb": { "Package": "tzdb", "Version": "0.4.0", @@ -2343,6 +4323,16 @@ ], "Hash": "f561504ec2897f4d46f0c7657e488ae1" }, + "ucminf": { + "Package": "ucminf", + "Version": "1.2.2", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R" + ], + "Hash": "e0750b911c01c3e5aaab143a86e9e478" + }, "utf8": { "Package": "utf8", "Version": "1.2.4", @@ -2363,6 +4353,48 @@ ], "Hash": "34e965e62a41fcafb1ca60e9b142085b" }, + "vcd": { + "Package": "vcd", + "Version": "1.4-13", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "MASS", + "R", + "colorspace", + "grDevices", + "grid", + "lmtest", + "stats", + "utils" + ], + "Hash": "c371981692e15016fd45aa5cf8f9b42c" + }, + "vcdExtra": { + "Package": "vcdExtra", + "Version": "0.8-5", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "MASS", + "R", + "ca", + "dplyr", + "glue", + "gnm", + "grDevices", + "grid", + "here", + "purrr", + "readxl", + "stats", + "stringr", + "tidyr", + "utils", + "vcd" + ], + "Hash": "7ebe6d6014b03ab83b51e5e8a914db88" + }, "vctrs": { "Package": "vctrs", "Version": "0.6.5", @@ -2426,6 +4458,33 @@ ], "Hash": "390f9315bc0025be03012054103d227c" }, + "waldo": { + "Package": "waldo", + "Version": "0.5.3", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cli", + "diffobj", + "glue", + "methods", + "rematch2", + "rlang", + "tibble" + ], + "Hash": "16aa934a49658677d8041df9017329b9" + }, + "warp": { + "Package": "warp", + "Version": "0.2.1", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R" + ], + "Hash": "fea474d578b1cbcb696ae6ac8bdcc439" + }, "withr": { "Package": "withr", "Version": "3.0.1", @@ -2438,6 +4497,56 @@ ], "Hash": "07909200e8bbe90426fbfeb73e1e27aa" }, + "workflows": { + "Package": "workflows", + "Version": "1.1.4", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cli", + "generics", + "glue", + "hardhat", + "lifecycle", + "modelenv", + "parsnip", + "rlang", + "tidyselect", + "vctrs" + ], + "Hash": "f2c2cefdf6babfed4594b33479d19fc3" + }, + "workflowsets": { + "Package": "workflowsets", + "Version": "1.1.0", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cli", + "dplyr", + "generics", + "ggplot2", + "glue", + "hardhat", + "lifecycle", + "parsnip", + "pillar", + "prettyunits", + "purrr", + "rlang", + "rsample", + "stats", + "tibble", + "tidyr", + "tune", + "vctrs", + "withr", + "workflows" + ], + "Hash": "ff4540bb4cccc1dd2447d58a97158820" + }, "xfun": { "Package": "xfun", "Version": "0.48", @@ -2451,6 +4560,20 @@ ], "Hash": "89e455b87c84e227eb7f60a1b4e5fe1f" }, + "xgboost": { + "Package": "xgboost", + "Version": "1.7.8.1", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "Matrix", + "R", + "data.table", + "jsonlite", + "methods" + ], + "Hash": "f7aa70849f72103d78c99df10eae6164" + }, "xml2": { "Package": "xml2", "Version": "1.3.6", @@ -2464,12 +4587,67 @@ ], "Hash": "1d0336142f4cd25d8d23cd3ba7a8fb61" }, + "xtable": { + "Package": "xtable", + "Version": "1.8-4", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "stats", + "utils" + ], + "Hash": "b8acdf8af494d9ec19ccb2481a9b11c2" + }, "yaml": { "Package": "yaml", "Version": "2.3.10", "Source": "Repository", "Repository": "CRAN", "Hash": "51dab85c6c98e50a18d7551e9d49f76c" + }, + "yardstick": { + "Package": "yardstick", + "Version": "1.3.1", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "cli", + "dplyr", + "generics", + "hardhat", + "lifecycle", + "rlang", + "tibble", + "tidyselect", + "utils", + "vctrs", + "withr" + ], + "Hash": "9ce4117141b326c4fffc7c42e56e0f88" + }, + "zip": { + "Package": "zip", + "Version": "2.3.1", + "Source": "Repository", + "Repository": "CRAN", + "Hash": "fcc4bd8e6da2d2011eb64a5e5cc685ab" + }, + "zoo": { + "Package": "zoo", + "Version": "1.8-12", + "Source": "Repository", + "Repository": "CRAN", + "Requirements": [ + "R", + "grDevices", + "graphics", + "lattice", + "stats", + "utils" + ], + "Hash": "5c715954112b45499fb1dadc6ee6ee3e" } } } \ No newline at end of file From f4e1fa4143a3e3f2d764248c59218604fcafe356 Mon Sep 17 00:00:00 2001 From: Alanah Jonas <156101954+alanahjonas95@users.noreply.github.com> Date: Mon, 21 Oct 2024 20:10:02 +0100 Subject: [PATCH 9/9] Update ancova.qmd --- R/ancova.qmd | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/R/ancova.qmd b/R/ancova.qmd index 1c20e65d7..508265682 100644 --- a/R/ancova.qmd +++ b/R/ancova.qmd @@ -56,7 +56,7 @@ ANOVA is a statistical method used to compare the means of three or more groups ANCOVA (Analysis of Covariance) is a statistical method that compares the means of two or more groups while controlling for one or more continuous covariates. By adjusting for these covariates, ANCOVA helps to reduce potential confounding effects, allowing for a clearer assessment of the main treatment effects. It assumes linear relationships between covariates and the dependent variable, along with normality and homogeneity of variances. -We follow the example from link \[Analysis of Covariance\](https://documentation.sas.com/doc/en/pgmsascdc/9.4_3.4/statug/statug_glm_examples04.htm) +We follow the example from link [Analysis of Covariance](https://documentation.sas.com/doc/en/pgmsascdc/9.4_3.4/statug/statug_glm_examples04.htm) ## Data Summary