Welcome to the pharmaverse blog! – pharmaverse blog

Creating a better universe with dverse

Technical

How to create a global search across an entire collection of R packages: A use case for the toy ‘admiralverse’

Introducing the aNCA Package for Automated Non-Compartmental Analysis

Shiny

ADaM

TLG

Submissions

(A Roche x Appsilon x Human Predictions Collaboration)

Ercan Suekuer, Jana Spinner, Gerardo R

How I Rebuilt a Lost ECG Data Script in R

SDTM

Technical

During my Data Science placement, I faced the challenge of recreating an ECG dataset for the {pharmaversesdtm} project after the original R script was lost. I explored the existing data, identified key parameters, and experimented with R packages to replicate the dataset structure and ensure SDTM compliance. Despite challenges with ensuring accurate ECG measurements, I eventually regenerated the dataset, learning valuable lessons in problem-solving and resilience.

Vladyslav Shuliar

Introducing sdtm.oak

SDTM

An EDC & Data Standards agnostic solution that enables the pharmaceutical programming community to develop SDTM datasets in R

Rammprasad Ganapathy

The Tension of High-Performance Computing: Reproducibility vs. Parallelization

Submissions

Technical

Discover how to manage parallel processing and ensure reproducibility in drug development using the {mirai} package and other HPC tools.

Alexandros Kouretsis, APPSILON

roxy.shinylive - shinylive applications in roxygen documentation

Shiny

Technical

Introducing a roxy.shinylive - a new tool for Shiny package developers

Undergraduate University Statistics Report using pharmaverseadam data

ADaM

Community

A short journal highlighting how I was able to use {pharmaverseadam} for my university work

Writing my first custom CICD action for the pharmaverseblog

Technical

I recently wrote my first custom CICD pipeline for the pharmaverseblog, in an effort to police the use of post tags within the blog. These are my learnings and experiences!

Edoardo Mancini

Meet our Diversity Champion – Laura Needleman

Community

On behalf of the pharmaverse council, we’d like to introduce you to Laura Needleman – an active member of our community who has volunteered to support us as a champion around DE&I.

Laura Needleman

teal and Posit Shiny Contest 2024

Shiny

Community

Introducing the {teal} category in the Post Shiny Contest 2024 and informing users on resources to make their teal app for the submission.

Dony Unardi, Pawel Rucki

Exploring the Top 5 pharmaverse Packages

Technical

Community

Shiny

This blog explores the top 5 popular pharmaverse packages for clinical reporting featuring {rtables}, {admiral}, {teal}, {riskmetric}, and {tidyCDISC} for improving data analysis and to ensure compliance.

Gift Kenneth, APPSILON

Working Groups Updates

Community

An update from pharmaverse council around how packages will get included in pharmaverse in future.

pharmaverse council

Simplifying Clinical Data Dashboards with {teal} and {pharmaverseadam}

Technical

Shiny

Community

Learn how to quickly develop interactive and reproducible clinical data dashboards using {teal} and {pharmaverseadam}.

Pavel Demin, Dror Berel, APPSILON

Unix versus SAS Time

Technical

This blog explores SAS and R date handling differences, focusing on epoch discrepancies and data types, and provides key tips for accurate date conversions to prevent a 10-year date shift.

Introducing a new Coursera course for hands-on clinical data science using R.

Community

Releasing our second (hands-on) Coursera course, aimed at enhancing the skills of data scientists and shedding light on the impact of R open-source software within the industry.

Joel Laxamana, Stefan Thoma

{admiral} 1.1.1 is here!

ADaM

Get to know what awaits you with the new release of the {admiral} package, including enhanced error messaging, improved documentation and much more!

Edoardo Mancini, Ben Straub

New {admiral} extension packages: {admiralpeds} & more coming soon!

Metadata

ADaM

Community

We are very excited to announce that new extension packages are expected very soon in the {admiral} family: {admiralpeds}, a pediatrics extension, and another extension (name TBC) for obesity in clinical trials

Fanny Gautier, Lina Patil

Diversity & Inclusion in pharmaverse

Community

An update from pharmaverse council regarding diversity and inclusion within our community.

pharmaverse council

Our experience as new admiral developers, coming from a CRO

Community

Conferences

As the first CRO having joined the {admiral} family, we are very excited to share with you our first steps and thoughts in this new adventure

Fanny Gautier, Lina Patil

TLG Catalog 🤝 WebR

TLG

Shiny

Introducing WebR to TLG Catalog: A Game Changer for Interactive Learning

De-Mystifying R Programming in Clinical Trials

Community

A blog highlighting the benefits/limitations of using R Programming and using the right tools to create value

Venkatesan Balu

Appsilon and Sanofi join the pharmaverse council!

Community

Updates to the pharmaverse council

Ari Siggaard Knoph

teal.modules.clinical v0.9.0 is now on CRAN!

TLG

Shiny

This package release now completes the suite of {teal} family of packages recently released to CRAN.

xportr 0.4.0

ADaM

SDTM

xportr is a tool tailor-made for clinical programmers, enabling them to generate CDISC-compliant XPT files for SDTM and/or ADaM. It streamlines the preparation on xpt files, ensuring they are primed for submission to clinical data validation applications or regulatory agencies.

Sadchla Mascary

Tips for First Time Contributors

Community

Open source can be daunting the first time you dive in - this blog will help you get started!

Inside the pharmaverse

Community

A short blog to help the Pharmaverse community understand how Pharmaverse is governed.

Rhino: A Step Forward in Validating Shiny Apps

Submissions

Community

In this post, we explore the importance of validation in the pharmaceutical industry and how Rhino framework aids in ensuring reliability and accuracy of Shiny applications.

Kamil Żyła, Ege Can Taşlıçukur, APPSILON

Filter out the noise!

ADaM

Technical

A brief exposition of the filter_* functions in {admiral} - what they do and how to use them.

Edoardo Mancini

ISCR 17th Annual Conference 2024

Conferences

This blog highlights my experience of presenting at Indian Society for Clinical Research (ISCR) 17th Annual Conference 2024.

teal is now available on CRAN 🎉

TLG

Shiny

Announcing the release of teal v0.15.0 on CRAN!

Testing Containers and WebAssembly in Submissions to the FDA

Submissions

In this post, we dig into the ongoing efforts undertaken to evaluate new technologies for submissions to the Food and Drug Administration (FDA). These transformative approaches, including WebAssembly and containers, hold immense potential to transform the regulatory landscape and streamline the submission process.

André Veríssimo, Tymoteusz Makowski, Pedro Silva, Vedha Viyash, APPSILON

PK Examples

Community

ADaM

Metadata

Explore PK ADaM Examples on Pharmaverse Examples Page

admiral 1.0.0

ADaM

1.0.0 brings a commitment to stability, new features, a few bug fixes, argument alignment and onboarding resources!

End of Year Update from the pharmaverse Council

Community

2023 Was a big year - let’s talk about it!

Mike Stackhouse

Believe in a higher order!

ADaM

Technical

A brief foray into the higher order functions in the {admiral} package.

Edoardo Mancini

Floating point

ADaM

Technical

The untold story of how admiral deals with floating points.

Reproducing the R Submissions Pilot 2 Shiny Application using Rhino

Submissions

Community

A short blog post about a Rhino pilot submission.

Ismael Rodriguez, Vedha Viyash, André Veríssimo, APPSILON

Date/Time Functions and Imputation in {admiral}

ADaM

Technical

Dates, times and imputation can be a frustrating facet of any programming language. Here’s how {admiral} makes all of this easy!

Edoardo Mancini

The pharmaverse (hi)story

Community

The pharmaverse: from motivation to present

Nicholas Eugenio

Rounding

Technical

Exploration of some commonly used rounding methods and their corresponding functions in SAS and R, with a focus on ‘round half up’ and reliable solutions for numerical precision challenges.

It’s all relative? - Calculating Relative Days using admiral

ADaM

Creating --DY variables for your ADaMs is super easy using derive_vars_dy() from the admiral package.

Cross-Industry Open Source Package Development

Community

Conferences

ADaM

This post is based on a talk given at the regional useR! conference on July 21st 2023 in Basel.

How to use Code Sections

ADaM

Technical

Code sections - are you using them right?

Edoardo Mancini

Blanks and NAs

ADaM

Technical

Reading SAS datasets into R. The data is not always as it seems!

cardinal

TLG

The {cardinal} initiative is an industry collaborative effort under pharmaversewith the aspiration of building and open-sourcing a comprehensive catalog of harmonized TLGs for clinical study reporting.

Hello pharmaverse

Community

Short, fun and user-driven content around the pharmaverse.

Admiral Hackathon 2023 Revisited

Community

ADaM

Let’s have a look at the Admiral Hackathon 2023 together.

Hackathon Feedback Application

Shiny

Community

ADaM

Going through the process of creating a shiny app for the admiral hackathon. The shiny app allows users to check their solutions autonomously, gives feedback, and rates their results.

Derive a new parameter computed from the value of other parameters

ADaM

Use admiral::derive_param_computed() like a calculator to derive new parameters/rows based on existing ones