Ecosyste.ms: Awesome

An open API service indexing awesome lists of open source software.

Awesome Lists | Featured Topics | Projects

https://github.com/insightsengineering/teal.modules.clinical

Provides teal modules for the standard clinical trials outputs
https://github.com/insightsengineering/teal.modules.clinical

clinical-trials modules nest outputs r shiny

Last synced: about 1 month ago
JSON representation

Provides teal modules for the standard clinical trials outputs

Host: GitHub
URL: https://github.com/insightsengineering/teal.modules.clinical
Owner: insightsengineering
License: other
Created: 2021-07-05T21:42:24.000Z (over 3 years ago)
Default Branch: main
Last Pushed: 2024-04-11T14:08:15.000Z (8 months ago)
Last Synced: 2024-04-11T20:13:59.899Z (8 months ago)
Topics: clinical-trials, modules, nest, outputs, r, shiny
Language: R
Homepage: https://insightsengineering.github.io/teal.modules.clinical/
Size: 52.2 MB
Stars: 28
Watchers: 25
Forks: 13
Open Issues: 83
Metadata Files:
- Readme: README.md
- Contributing: .github/CONTRIBUTING.md
- License: LICENSE
- Code of conduct: .github/CODE_OF_CONDUCT.md
- Security: SECURITY.md

Awesome Lists containing this project

top-pharma50 - **insightsengineering/teal.modules.clinical** - trials`, `modules`, `nest`, `outputs`, `r`, `shiny`<br><img src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'> 29 <img src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'> 13 <img src='https://github.com/HubTou/topgh/blob/main/icons/code.png'> R <img src='https://github.com/HubTou/topgh/blob/main/icons/license.png'> Other <img src='https://github.com/HubTou/topgh/blob/main/icons/last.png'> 2024-06-07 21:36:01 | (Ranked by starred repositories)
top-pharma50 - **insightsengineering/teal.modules.clinical** - trials`, `modules`, `nest`, `outputs`, `r`, `shiny`<br><img src='https://github.com/HubTou/topgh/blob/main/icons/gstars.png'> 29 <img src='https://github.com/HubTou/topgh/blob/main/icons/forks.png'> 13 <img src='https://github.com/HubTou/topgh/blob/main/icons/code.png'> R <img src='https://github.com/HubTou/topgh/blob/main/icons/license.png'> Other <img src='https://github.com/HubTou/topgh/blob/main/icons/last.png'> 2024-06-07 21:36:01 | (Ranked by starred repositories)
awesome-shiny-extensions - teal.modules.clinical - A set of teal modules for standard clinical outputs. (Frameworks / Framework extensions)

README

        # teal.modules.clinical

[![CRAN Version](https://www.r-pkg.org/badges/version/teal.modules.clinical?color=green)](https://cran.r-project.org/package=teal.modules.clinical)

[![Total Downloads](http://cranlogs.r-pkg.org/badges/grand-total/teal.modules.clinical?color=green)](https://cran.r-project.org/package=teal.modules.clinical)

[![Last Month Downloads](http://cranlogs.r-pkg.org/badges/last-month/teal.modules.clinical?color=green)](https://cran.r-project.org/package=teal.modules.clinical)

[![Last Week Downloads](http://cranlogs.r-pkg.org/badges/last-week/teal.modules.clinical?color=green)](https://cran.r-project.org/package=teal.modules.clinical)

[![Check 🛠](https://github.com/insightsengineering/teal.modules.clinical/actions/workflows/check.yaml/badge.svg)](https://insightsengineering.github.io/teal.modules.clinical/main/unit-test-report/) [![Docs 📚](https://github.com/insightsengineering/teal.modules.clinical/actions/workflows/docs.yaml/badge.svg)](https://insightsengineering.github.io/teal.modules.clinical/)

![GitHub forks](https://img.shields.io/github/forks/insightsengineering/teal.modules.clinical?style=social)

![GitHub repo stars](https://img.shields.io/github/stars/insightsengineering/teal.modules.clinical?style=social)

![GitHub commit activity](https://img.shields.io/github/commit-activity/m/insightsengineering/teal.modules.clinical)

![GitHub contributors](https://img.shields.io/github/contributors/insightsengineering/teal.modules.clinical)

![GitHub last commit](https://img.shields.io/github/last-commit/insightsengineering/teal.modules.clinical)

![GitHub pull requests](https://img.shields.io/github/issues-pr/insightsengineering/teal.modules.clinical)

![GitHub repo size](https://img.shields.io/github/repo-size/insightsengineering/teal.modules.clinical)

![GitHub language count](https://img.shields.io/github/languages/count/insightsengineering/teal.modules.clinical)

[![Project Status: Active -- The project has reached a stable, usable state and is being actively developed.](https://www.repostatus.org/badges/latest/active.svg)](https://www.repostatus.org/#active)

[![Current Version](https://img.shields.io/github/r-package/v/insightsengineering/teal.modules.clinical/main?color=purple&label=package%20version)](https://github.com/insightsengineering/teal.modules.clinical/tree/main)

[![Open Issues](https://img.shields.io/github/issues-raw/insightsengineering/teal.modules.clinical?color=red&label=open%20issues)](https://github.com/insightsengineering/teal.modules.clinical/issues?q=is%3Aissue+is%3Aopen+sort%3Aupdated-desc)

This package contains a set of standard `teal` modules to be used with `CDISC` data in order to generate many of the standard outputs used in clinical trials.

These modules include, but are not limited to:

-   Data visualizations:

    -   Forest plots (`tm_g_forest_rsp()`/`tm_g_forest_tte()`)

    -   Line plots (`tm_g_lineplot()`)

    -   Kaplan-Meier plots (`tm_g_km()`)

    -   ...

-   Statistical model fits:

    -   MMRM (`tm_a_mmrm()`)

    -   Logistic regression (`tm_t_logistic()`)

    -   Cox regression (`tm_t_coxreg()`)

    -   ...

-   Summary tables:

    -   Unique patients (`tm_t_summary()`)

    -   Exposure across patients (`tm_t_exposure()`)

    -   Change from baseline for parameters (`tm_t_summary_by()`)

    -   ...

-   Patient-level profile modules:

    -   Table of basic information about chosen patient (`tm_t_pp_basic_info()`)

    -   Plot of patient vitals over time (`tm_g_pp_vitals()`)

    -   General timeline for individual patients (`tm_g_pp_patient_timeline()`)

    -   ...

Most modules in the package are implemented using functions from the R package [`tern`](https://insightsengineering.github.io/tern/) in order to produce their output.

Please see the [Teal Gallery](https://insightsengineering.github.io/teal.gallery/) and [TLG Catalog](https://insightsengineering.github.io/tlg-catalog/) for examples of `shiny` apps created using modules from this package.

## Installation

```r

install.packages('teal.modules.clinical')

```

Alternatively, you might want to use the development version.

```r

# install.packages("pak")

pak::pak("insightsengineering/teal.modules.clinical")

```

## Usage

To understand how to use this package, please refer to the [Getting Started](https://insightsengineering.github.io/teal.modules.clinical/latest-tag/articles/teal-modules-clinical.html) article, which provides multiple examples of code implementation.

## Playground

You can try out the package without installing it in the Shinylive:

* [stable](https://shinylive.io/r/editor/#code=NobwRAdghgtgpmAXGKAHVA6ASmANGAYwHsIAXOMpMAGwEsAjAJykYE8AKcqajGIgEwCu1OAGcMBOhFoFuASgA6EMAF8AukA)

* [development](https://shinylive.io/r/editor/#code=NobwRAdghgtgpmAXGKAHVA6ASmANGAYwHsIAXOMpMI1UgSxIGcAKAdzgCMAnAfVQGsA5jy5xURRgAIAvJILMAOmC4BaAK4Q6ANzhdGcJTMlKAFqVKpGiAPTXUJqFxhQdeuBlUbtu-RgAmcFpKuJKCcKQA8rQMEIpg7Nx8QiJiEkoAlJkKEAA2dNyOAJ7M5FA5GDBEfmo5cIwYBHmaBGXp2WAAvgC6QA)

## Getting help

If you encounter a bug or have a feature request, please file an issue. For questions, discussions, and staying up to date, please use the `teal` channel in the [`pharmaverse` slack workspace](https://pharmaverse.slack.com).

## Acknowledgment

This package is the result of the joint efforts of many developers and stakeholders. We would like to thank everyone who has contributed so far!

## Stargazers and Forkers

### Stargazers over time

[![Stargazers over time](https://starchart.cc/insightsengineering/teal.modules.clinical.svg)](https://starchart.cc/insightsengineering/teal.modules.clinical)

### Stargazers

[![Stargazers repo roster for](https://reporoster.com/stars/insightsengineering/teal.modules.clinical)](https://github.com/insightsengineering/teal.modules.clinical/stargazers)

### Forkers

[![Forkers repo roster for](https://reporoster.com/forks/insightsengineering/teal.modules.clinical)](https://github.com/insightsengineering/teal.modules.clinical/network/members)