psiQC

psiQC is an R package designed to facilitate quality control in leaf water potential measurements, integrated with the SAPFLUXNET database. This package provides tools and scripts to ensure data integrity and reliability.

Installation

Currently, psiQC is available as a development version on GitHub. You can install it using devtools:

# Install devtools if you haven't already
if (!requireNamespace("devtools", quietly = TRUE)) {
    install.packages("devtools")
}

# Install psiQC from GitHub
devtools::install_github("vflo/psiQC")

Usage

To effectively use psiQC follow these steps:

1. Set Up Your R Project

Start by creating a new R project. This will be your working environment where all scripts and data will be organized.

2. Prepare Your Server and Environment

• Server Preparation Script: Begin by running the server_preparation_script.R script found in the inst/run_scripts directory of the psiQC package. This initial step sets up your working environment and prepares it for the quality control of your data.

3. Organize Your Data

• Data Storage: Place your raw data files in the received_data directory located at the root of your project. The path will typically look like ./received_data/ARG_MAZ.xlsx. Ensure your data files, such as Excel spreadsheets, are correctly named and placed in this directory for processing.

4. Execute Quality Control

• Running QC Script: With your environment and data prepared, proceed to run the main_script.R found in your R project root. This script conducts a comprehensive series of quality control checks on your data. Make sure to follow any additional instructions specified within the main_script.R.

5. Review QC Reports

• QC Report Generation: For each site data processed, psiQC generates a detailed QC report. These reports highlight any identified issues with the data.

License

psiQC is licensed under the MIT License Creative Commons Attribution 4.0 International (CC BY 4.0) licensing guidelines.