Package: germinationmetrics 0.1.8.9000

germinationmetrics: Seed Germination Indices and Curve Fitting

Provides functions to compute various germination indices such as germinability, median germination time, mean germination time, mean germination rate, speed of germination, Timson's index, germination value, coefficient of uniformity of germination, uncertainty of germination process, synchrony of germination etc. from germination count data. Includes functions for fitting cumulative seed germination curves using four-parameter hill function and computation of associated parameters. See the vignette for more, including full list of citations for the methods implemented.

Authors:J. Aravind [aut, cre], S. Vimala Devi [aut], J. Radhamani [aut], Sherry Rachel Jacob [aut], Kalyani Srinivasan [aut], ICAR-NBGPR [cph]

germinationmetrics_0.1.8.9000.tar.gz


germinationmetrics_0.1.8.9000.tar.gz(r-4.4-noble)
germinationmetrics_0.1.8.9000.tgz(r-4.4-emscripten)germinationmetrics_0.1.8.9000.tgz(r-4.3-emscripten)
germinationmetrics.pdf |germinationmetrics.html✨
germinationmetrics/json (API)
NEWS

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

Peer review:

Bug tracker:https://github.com/aravind-j/germinationmetrics/issues

Datasets:
  • gcdata - Germination count data

On CRAN:

curve-fittinggerminationgermination-indicesseedseed-germination-curveseed-germination-indices

44 exports 3 stars 1.77 score 46 dependencies 2 mentions 25 scripts 1.4k downloads

Last updated 1 months agofrom:9daef5d5b2. Checks:ERROR: 1. Indexed: yes.

TargetResultDate
Doc / VignettesFAILSep 09 2024

Exports:CUGermCVGCVGermTimedraw_key_path2EmergenceRateIndexFirstGermTimeFourPHFFourPHF_fixaFourPHF_fixa_fixy0FourPHF_fixy0FourPHFfitFourPHFfit.bulkgeom_line2geom_path2GeomLine2GeomPath2germination.indicesGermIndexGermPercentGermRateGeorgeGermRateRecipGermSpeedGermSpeedAccumulatedGermSpeedCorrectedGermSynchronyGermUncertaintyGermValueLastGermTimeMeanGermNumberMeanGermPercentMeanGermRateMeanGermTimePeakGermPercentPeakGermTimePeakValueRateofGermSEGermRateSEGermTimet50TimeSpreadGermTimsonsIndexVarGermRateVarGermTimeWeightGermPercent

Dependencies:backportsbroomclicolorspacecpp11data.tabledplyrfansifarvergenericsggplot2ggrepelgluegslnlsgtableisobandlabelinglatticelifecyclemagrittrMASSmathjaxrMatrixmgcvmunsellnlmepillarpkgconfigplyrpurrrR6rbibutilsRColorBrewerRcppRdpackrlangscalesstringistringrtibbletidyrtidyselectutf8vctrsviridisLitewithr

Readme and manuals

Help Manual

Help pageTopics
Coefficient of uniformity of germinationCUGerm
Emergence Rate Index or Germination Rate IndexEmergenceRateIndex
Time for first, last and peak germinationFirstGermTime LastGermTime PeakGermTime TimeSpreadGerm
Four paramter hill functionFourPHF FourPHF_fixa FourPHF_fixa_fixy0 FourPHF_fixy0 RateofGerm
Fit four-parameter hill functionFourPHFfit
Fit four-parameter hill function for multiple samplesFourPHFfit.bulk
Germination count datagcdata
Germination Indicesgermination.indices
Germination IndexGermIndex
Germination percentageGermPercent PeakGermPercent
Speed of germinationGermSpeed GermSpeedAccumulated GermSpeedCorrected
Synchrony and uncertainty of germinationGermSynchrony GermUncertainty
Peak value and germination valueGermValue PeakValue
Mean germination percentage and number of seeds per time intervalMeanGermNumber MeanGermPercent
Germination rateCVG GermRateRecip MeanGermRate SEGermRate VarGermRate
Germination timeCVGermTime MeanGermTime SEGermTime VarGermTime
Plot the four-parameter hill function fitted cumulative germination curve from a 'FourPHFfit' objectplot.FourPHFfit
Plot the multiple four-parameter hill function fitted cumulative germination curves from a 'FourPHFfit.bulk' objectplot.FourPHFfit.bulk
Median germination timet50
Timson's indexGermRateGeorge TimsonsIndex
Weighted germination percentageWeightGermPercent