Preclinical Study Analysis

R/Shiny app for longitudinal mouse study analysis. The public version focuses on a typical preclinical workflow: import study tables, review mapped fields, generate weight, clinical score, and survival outputs, and export figures plus analysis-ready CSV files.

Key features

• CSV and Excel import with column mapping and validation
• Manual entry for longitudinal weight data
• Weight trajectory plots
• Clinical score plots
• Kaplan-Meier survival plots
• Summary statistics and pairwise tests
• Export of PNG, TIFF, PDF, and GraphPad-friendly CSV outputs
• Synthetic example files for local testing

Quick start

install.packages(
  c(
    "shiny", "bslib", "DT", "readr", "readxl", "dplyr", "tidyr",
    "ggplot2", "survival", "janitor", "stringr", "rappdirs",
    "scales", "colourpicker", "rhandsontable", "jsonlite",
    "shinyjs", "digest", "testthat"
  ),
  repos = "https://cloud.r-project.org"
)
source("scripts/dev_run.R")

For Windows PowerShell, scripts/windows_run_public.ps1 will locate Rscript.exe, render example plots, and launch the app.

Example outputs / screenshots

Weight trajectory example:

Kaplan-Meier survival example:

Technologies used

R, Shiny, ggplot2, dplyr, survival, readr/readxl, renv

Scope / limitations

The main focus here is the interactive analysis workflow. Some batch-reporting helpers remain in the repo, but institution-specific hosting, notification, and data-source configuration are intentionally omitted from the public release.