Package: epifitter 0.3.0

Kaique dos S. Alves

epifitter: Analysis and Simulation of Plant Disease Progress Curves

Analysis and visualization of plant disease progress curve data. Functions for fitting two-parameter population dynamics models (exponential, monomolecular, logistic and Gompertz) to proportion data for single or multiple epidemics using either linear or no-linear regression. Statistical and visual outputs are provided to aid in model selection. Synthetic curves can be simulated for any of the models given the parameters. See Laurence V. Madden, Gareth Hughes, and Frank van den Bosch (2007) <doi:10.1094/9780890545058> for further information on the methods.

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

epifitter_0.3.0.tar.gz
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epifitter.pdf |epifitter.html
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

Datasets:

On CRAN:

Conda-Forge:

5.50 score 6 stars 53 scripts 358 downloads 18 exports 79 dependencies

Last updated 1 months agofrom:fa32823f50. Checks:1 OK, 7 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKFeb 23 2025
R-4.5-winNOTEFeb 23 2025
R-4.5-macNOTEFeb 23 2025
R-4.5-linuxNOTEFeb 23 2025
R-4.4-winNOTEFeb 23 2025
R-4.4-macNOTEFeb 23 2025
R-4.3-winNOTEFeb 23 2025
R-4.3-macNOTEFeb 23 2025

Exports:AUDPCAUDPC_2_pointsAUDPSexpo_funfit_linfit_multifit_nlinfit_nlin2gompi_funlogi_funmono_funplot_fitprint.fit_linprint.fit_nlin2sim_exponentialsim_gompertzsim_logisticsim_monomolecular

Dependencies:askpassbitbit64bootcellrangerclassclicliprcolorspacecpp11crayoncurldata.tableDescToolsdeSolvedplyre1071evaluateExactexpmfansifarverforcatsgenericsggplot2gldgluegtablehavenhighrhmshttrisobandjsonliteknitrlabelinglatticelifecyclelmommagrittrMASSMatrixmgcvmimeminpack.lmmunsellmvtnormnlmeopensslpillarpkgconfigprettyunitsprogressproxypurrrR6RColorBrewerRcppreadrreadxlrematchrlangrootSolverstudioapiscalesstringistringrsystibbletidyrtidyselecttzdbutf8vctrsviridisLitevroomwithrxfunyaml

Fitting and selecting models

Rendered fromfitting.Rmdusingknitr::rmarkdownon Feb 23 2025.

Last update: 2021-06-01
Started: 2020-09-02

Simulating disease progress curves

Rendered fromsimulation.Rmdusingknitr::rmarkdownon Feb 23 2025.

Last update: 2021-06-01
Started: 2020-09-02