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.


Version : 0.1.1; Copyright (C) 2017-2018: ICAR-NBPGR; License: GPL2|GPL-3
J. Aravind, S. Vimala Devi, J. Radhamani, Sherry R. Jacob and Kalyani Srinivasan

ICAR-National Bureau of Plant Genetic Resources, New Delhi


minimal Rversion License: GPLv3 CRAN_Status_Badge rstudio mirrordownloads

develVersion

Project Status:WIP lifecycle Last-changedate Rdoc ZenodoDOI Analytics


Description

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.

Installation

The package can be installed from CRAN as follows:

install.packages('germinationmetrics', dependencies=TRUE)

The development version can be installed from github as follows:

devtools::install_github("aravind-j/germinationmetrics")

Detailed tutorial

For a detailed tutorial on how to used this package type:

browseVignettes(package = 'germinationmetrics')

What’s new

To know whats new in this version type:

news(package='germinationmetrics')

Links

CRAN page

Github page

Github website

Zenodo DOI

Citing germinationmetrics

To cite the methods in the package use:

citation("germinationmetrics")

To cite the R package 'germinationmetrics' in publications use:

  J. Aravind, S. Vimala Devi, J. Radhamani, Sherry Rachel Jacob
  and Kalyani Srinivasan (2018).  germinationmetrics: Seed
  Germination Indices and Curve Fitting. R package version 0.1.1,
  https://cran.r-project.org/package=germinationmetrics,
  https://doi.org/10.5281/zenodo.1219630.

A BibTeX entry for LaTeX users is

  @Manual{,
    title = {germinationmetrics: Seed Germination Indices and Curve Fitting},
    author = {{Aravind J} and {Vimala Devi S} and {Radhamani J} and {Sherry Rachel Jacob} and {Kalyani Srinivasan}},
    year = {2018},
    note = {R package version 0.1.1},
    note = {https://cran.r-project.org/package=germinationmetrics},
    note = {https://doi.org/10.5281/zenodo.1219630},
  }

This free and open-source software implements academic research by
the authors and co-workers. If you use it, please support the
project by citing the package.

News

germinationmetrics 0.1.1

NEW FUNCTIONS:

  • plot.FourPHFfit - plot method for FourPHFfit.

UPDATED FUNCTIONS:

  • FourPHFfit - Fixed code to accomodate changes in the new release of broom package.
  • FourPHFfit - Separated plot method to new function plot.FourPHFfit.

OTHER NOTES:

  • Fixed citation information.
  • Added zenodo and rdocumentation badges.
  • Added CRAN installation instructions in Readme.
  • Added logo.

germinationmetrics 0.1.0

  • First release

germinationmetrics 0.0.0.9000

  • Pre-release

Reference manual

It appears you don't have a PDF plugin for this browser. You can click here to download the reference manual.

install.packages("germinationmetrics")

0.1.3 by J. Aravind, 7 months ago


https://github.com/aravind-j/germinationmetrics, https://aravind-j.github.io/germinationmetrics/ https://CRAN.R-project.org/package=germinationmetrics https://doi.org/10.5281/zenodo.1219630


Report a bug at https://github.com/aravind-j/germinationmetrics/issues


Browse source code at https://github.com/cran/germinationmetrics


Authors: J. Aravind [aut, cre] , S. Vimala Devi [aut] , J. Radhamani [aut] , Sherry Rachel Jacob [aut] , Kalyani Srinivasan [aut] , ICAR-NBGPR [cph] (www.nbpgr.ernet.in)


Documentation:   PDF Manual  


GPL-2 | GPL-3 license


Imports broom, data.table, ggplot2, ggrepel, minpack.lm, plyr, Rdpack, utils, stats

Suggests knitr, rmarkdown, reshape2, pander, XML, httr, RCurl


See at CRAN