Package: epifitter 1.0.0

Kaique dos S. Alves

epifitter: Analysis and Simulation of Plant Disease Progress Curves

Tools for analysis, visualization, and simulation of plant disease progress curves. Includes functions to calculate area-under-the-curve summaries, fit and compare exponential, monomolecular, logistic, and Gompertz models using linear or nonlinear regression, work with single or multiple epidemics, and produce 'ggplot2'-based visualizations. Also includes an experimental powdery mildew dataset for reproducible teaching and research workflows. See Madden, Hughes, and van den Bosch (2007) <doi:10.1094/9780890545058> for background on the epidemiological methods.

Authors:Kaique dos S. Alves [aut, cre], Emerson M. Del Ponte [aut], Adam H. Sparks [aut]

epifitter_1.0.0.tar.gz
epifitter_1.0.0.zip(r-4.7)epifitter_1.0.0.zip(r-4.6)epifitter_1.0.0.zip(r-4.5)
epifitter_1.0.0.tgz(r-4.6-any)epifitter_1.0.0.tgz(r-4.5-any)
epifitter_1.0.0.tar.gz(r-4.7-any)epifitter_1.0.0.tar.gz(r-4.6-any)
epifitter_1.0.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html
card.svg |card.png
epifitter/json (API)
NEWS

# Install 'epifitter' in R:
install.packages('epifitter', repos = c('https://alvesks.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/alvesks/epifitter/issues

Pkgdown/docs site:https://alvesks.github.io

Datasets:
  • PowderyMildew - Powdery mildew disease progress curves in organic tomato

On CRAN:

Conda:

7.55 score 5 stars 95 scripts 15k downloads 16 exports 72 dependencies

Last updated from:1791d02dfc. Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64OK162
source / vignettesOK202
linux-release-x86_64OK141
macos-release-arm64OK128
macos-oldrel-arm64OK202
windows-develOK94
windows-releaseOK133
windows-oldrelOK99
wasm-releaseOK122

Exports:AUDPCAUDPC_2_pointsAUDPSexpo_funfit_linfit_multifit_nlinfit_nlin2gompi_funlogi_funmono_funplot_fitsim_exponentialsim_gompertzsim_logisticsim_monomolecular

Dependencies:askpassbitbit64bootcellrangerclassclicliprcowplotcpp11crayoncurldata.tableDescToolsdeSolvedplyre1071Exactexpmfarverforcatsfsgenericsggplot2gldgluegtablehavenhmshttrisobandjsonlitelabelinglatticelifecyclelmommagrittrMASSMatrixmimeminpack.lmmvtnormopensslpillarpkgconfigprettyunitsprogressproxypurrrR6RColorBrewerRcppreadrreadxlrematchrlangrootSolverstudioapiS7scalesstringistringrsystibbletidyrtidyselecttzdbutf8vctrsviridisLitevroomwithr

Area-under-the-curve summaries

Rendered fromarea-under-curve.Rmdusingknitr::rmarkdownon May 12 2026.

Last update: 2026-04-11
Started: 2026-04-11

Getting started with epifitter

Rendered fromgetting-started.Rmdusingknitr::rmarkdownon May 12 2026.

Last update: 2026-04-11
Started: 2026-04-11

Model fitting workflows

Rendered frommodel-fitting.Rmdusingknitr::rmarkdownon May 12 2026.

Last update: 2026-04-11
Started: 2026-04-11

Simulation workflows

Rendered fromsimulation-workflows.Rmdusingknitr::rmarkdownon May 12 2026.

Last update: 2026-04-11
Started: 2026-04-11

Working with the PowderyMildew dataset

Rendered frompowdery-mildew-data.Rmdusingknitr::rmarkdownon May 12 2026.

Last update: 2026-04-11
Started: 2026-04-11