Frequentist nonlinear calibration curves for the curveR suite.
Installation
# Install curveRcore first
devtools::install_github("immunoplex/curveRcore")
# Then curveRfreq
devtools::install_github("immunoplex/curveRfreq")Quick start
library(curveRfreq)
data(bead_assay_example, package = "curveRfreq")
# Preprocess standards (upstream of fitting)
std_pre <- curveRcore::preprocess_standards(...)
# Fit all curves
mp <- fit_calibration_freq_multiplate(
standards = std_pre,
samples = bead_assay_example$samples,
response_var = "mfi",
std_curve_conc = 30
)
# One-row-per-curve summary
summary_table(mp)
# All sample back-calculations
collect_samples(mp)Quick Reference
| Task | Command |
|---|---|
| Regenerate man pages | devtools::document() |
| Full site rebuild | pkgdown::build_site(dest_dir = "docs") |
| Reference pages only | pkgdown::build_reference() |
| Vignette only | pkgdown::build_articles() |
| Home page only | pkgdown::build_home() |
| Check no topics are unassigned | setdiff(pkg$topics$name, unlist(lapply(cfg$reference, "[[", "contents"))) |
| Preview locally | Open docs/index.html
|
| Push and deploy | git add docs/ && git commit -m "..." && git push |
Troubleshooting
| Problem | Fix |
|---|---|
curveRcore not found during CI |
Add the install_github("immunoplex/curveRcore") step before setup-r-dependencies in the workflow |
Vignette fails during R CMD check
|
Add eval = requireNamespace("curveRcore", quietly = TRUE) to the setup chunk |
bead_assay_example not found |
Run usethis::use_data(bead_assay_example) and add a R/data.R roxygen block |
| Function missing from Reference | Check @export is present; re-run devtools::document()
|
| LaTeX equations not rendering | Add mathjax: true under template: in _pkgdown.yml
|
docs/ not served by GitHub |
Settings → Pages: branch main, folder /docs
|
See vignette("frequentist-quickstart", package = "curveRfreq") for the full worked example.