asancpt/edison-NonCompart

Edison App: Comprehensive Noncompartmental Analysis of Pharmacokinetic Data

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html_document pdf_document default includes latex_engine in_header preamble.tex xelatex

NonCompart, Edison Science App Manual

• Sungpil Han
• http://simp.ly/publish/CpFRmg

Introduction

이것은 NonCompart, Edison Science App Manual 메뉴얼입니다. 이 프로그램은 Github에 소스코드가 올려져 있고 공개 프로그램으로 관리됩니다. 감사합니다.

• NonCompart Edison Science App
• 개발환경 : R 3.4.1

2017-08 Sungpil Han

NonCompart Edison

• NonCompart Edison https://www.edison.re.kr/web/cmed/run_simulation
• NonCompart Edison is open to everyone. We are happy to take your input. Please fork the repo, modify the codes and submit a pull request. https://github.com/shanmdphd/NonCompartEdison

Installation of NonCompart R Package

install.packages("NonCompart")
library(NonCompart)
NCA(Theoph, "Subject", "Time", "conc", Dose=320)

Help

• NonCompart package help https://cran.r-project.org/web/packages/NonCompart/NonCompart.pdf

Dataset requirement

• Undetectable concentrations for first time points should be entered as 0; for last points - as NA (missed values).

Demo datasets

• BE https://statist.shinyapps.io/bioeq_en/
• Theoph: Oral 320 mg (N=12) http://stat.ethz.ch/R-manual/R-devel/library/datasets/html/Theoph.html
• Indometh: IV 25 mg (N=6) http://stat.ethz.ch/R-manual/R-devel/library/datasets/html/Indometh.html
• sd_oral_richpk: Oral 5000mg (N=50) https://github.com/dpastoor/PKPDdatasets
• sd_iv_rich_pkpd: IV diverse dosing (N=60) https://github.com/dpastoor/PKPDdatasets

CDISC materials

• CDISC SDTM Implementation Guide 3.2 PDF
• CDISC Terminology PDF

Reference

• Rowland M, Tozer TN. Clinical Pharmacokinetics and Pharmacodynamics - Concepts and Applications. 4e. 2011
• Gibaldi M, Perrier D. Pharmacokinetics 2e revised and expanded. 1982

R Packages

• Kyun-Seop Bae (2016). NonCompart: Noncompartmental Analysis of Pharmacokinetics. R package version 0.2.3. https://CRAN.R-project.org/package=NonCompart
• H. Wickham. ggplot2: Elegant Graphics for Data Analysis. Springer-Verlag New York, 2009.
• Hadley Wickham. tidyr: Easily Tidy Data with spread() and gather() Functions. R package version 0.6.0.9000. https://github.com/hadley/tidyr
• Winston Chang, Joe Cheng, JJ Allaire, Yihui Xie and Jonathan McPherson (2016). shiny: Web Application Framework for R. R package version 0.14.2. https://CRAN.R-project.org/package=shiny
• JJ Allaire, Jeffrey Horner, Vicent Marti and Natacha Porte (2015). markdown: 'Markdown' Rendering for R. R package version 0.7.7. https://CRAN.R-project.org/package=markdown
• Philippe Grosjean and Frederic Ibanez (2014). pastecs: Package for Analysis of Space-Time Ecological Series. R package version 1.3-18. https://CRAN.R-project.org/package=pastecs
• Hadley Wickham and Romain Francois (2016). dplyr: A Grammar of Data Manipulation. R package version 0.5.0. https://CRAN.R-project.org/package=dplyr
• David Gohel. ggiraph: Make 'ggplot2' Graphics Interactive. R package version 0.3.2. https://davidgohel.github.io/ggiraph