geom_line2
- A modification ofggplot2::geom_line
to plot both lines and points together.
FourPHFfit
- Added better error handling. Now gracefully fails by returning empty output due to convergence errors or when fitting is not possible.FourPHFfit.bulk
- Added better convergence error handling. Added grid search for finding starting values.plot.FourPHFfit.bulk
- Now usesgeom_errorbar
for showing uniformity. Added better plotting without overlap usinggeom_line2
.t50
- Fixes bug causing incorrect results when multiple values of Ni and Nj are present (Thanks to Aude Maugarny @amaugarn).
FirstGermTime
,LastGermTime
,TimeSpreadGerm
- Fixed issue with incorrect display of results in case of intervals which are not in days (Thanks to D. Vijay Dunna.Vijay[at]icar.gov.in).FourPHFfit
,plot.FourPHFfit
FourPHFfit.bulk
andplot.FourPHFfit.bulk
- Replaced fitting usingminpack.lm::nlsLM
withgslnls::gsl_nls
.FourPHFfit.bulk
andplot.FourPHFfit.bulk
- Fixed issue with plotting of cumulative data withshow.points = TRUE
(Thanks to D. Vijay for Dunna.Vijay[at]icar.gov.in).FourPHFfit.bulk
- Added fit quality evaluation in output.VarGermTime
,SEGermTime
,SEGermRate
,CUGerm
- Fixed calculation bug with cumulative data.
- Added unit tests with
testthat
. - Fixed
inst/CITATION
.
FourPHFfit.bulk
- Fixed false "total number of seeds tested is less than the total number of germinated seeds
" warning when germination count data is cumulative (Thanks to D. Vijay for Dunna.Vijay[at]icar.gov.in).FourPHFfit
- Updated computation of starting values.
- Resolved duplicate chunk labels.
- Updated documentation for
WeightGermPercent
andgermination.indices
to fix HTML validation problems.
PeakGermPercent
- Compute peak germination percentage.
FirstGermTime
,LastGermTime
andPeakGermTime
- Updated documentation with formula.EmergenceRateIndex
- Depreciate erroneousmethod
argument options ofmelville
andmelvillesantanaranal
and replace them withshmueligoldberg
andsgsantanaranal
respectively.GermSpeedCorrected
- Use germination percentage instead of counts.EmergenceRateIndex
,GermIndex
,GermSpeedCorrected
,GermValue
,GermRateRecip
andTimsonsIndex
- Minor documentation update.
- Fixed fetching CRAN page for version history to fail gracefully when access is down.
- Updated units in Table 3.
plot.FourPHFfit.bulk
- Wrapper function aroundFourPHFfit
for multiple samples.
FourPHFfit
- Added warning for low germination percentages. Modified to returnNA
output for zero total germination inputs with non-converging fits so as not to breakFourPHFfit.bulk
.
- Removed cairo dependency.
FourPHFfit.bulk
- Wrapper function aroundFourPHFfit
for multiple samples.GermIndex
- Compute germination index according to Melville et al., (1980).EmergenceRateIndex
- Compute emergence rate index according to Shmueli and Goldberg (1971), Bilbro and Wanjura (1982), and Fakorede and Ayoola (1980).
FourPHFfit
- Added more checks for the input argumentsumax
,umin
,xp
,tries
andtmax
.MeanGermPercent
,MeanGermNumber
,GermSynchrony
,GermUncertainty
,TimsonsIndex
,GermRateGeorge
,GermSpeed
,GermSpeedAccumulated
,FirstGermTime
,GermValue
,PeakValue
,WeightGermPercent
,t50
,MeanGermRate
,MeanGermTime
,germination.indices
,FourPHFfit
andFourPHFfit.bulk
- Fixed the check for uniformity of intervals to handle non-integer values correctly. Closes issue #3.(Thanks to Jonas Ohlsson [@jonasoh])TimsonsIndex
andGermRateGeorge
- Fixed to handle interval data other than days.
- Fixed details of Median germination time in Table 3.
- Fixed typo in formula for CUG in Table 3.
- Added reference for Coefficient of variation of the germination time in Table 3.
- Reverted to using system certificates instead of RCurl ones for fetching and displaying version history as suggested by Prof. Brian Ripley (ripley@stats.ox.ac.uk).
- Error in case of non-uniform intervals converted to warning.
- Fixed documentation errors in
FourPHFfit
andCVGermTime
. - Updated documentation for
GermSpeed
,GermSpeedAccumulated
,CUGerm
MeanGermRate
,SEGermRate
,CVG
,MeanGermTime
,VarGermTime
,SEGermTime
,GermUncertainty
,GermSynchrony
,MeanGermPercent
,MeanGermNumber
,WeightGermPercent
,TimsonsIndex
,GermRateGeorge
andGermSynchrony
. - Converted all equations in Rd files to
MathJax
usingmathjaxr
- Added long running examples to
\donttest
ingermination.indices
,plot.FourPHFfit
,gcdata
andFourPHFfit.bulk
.
WeightGermPercent
- Compute the Weighted germination percentage.germination.indices
- wrapper function to compute germination indices in batch.
CVGermTime
- Fixed error in function name (CVSEGermTime
).TimsonsIndex
- Fixed error in method name (khanungar
).GermSpeed
andGermSpeedAccumulated
- Updated with option to use percentage germination in addition to germination counts.GermSpeedCorrected
- Updated with option to useGermSpeedAccumulated
in addition toGermSpeed
.GermValue
- Updated with option to consider time from start of test in addition to time from onset of germination.
- Fixed LATEX xcolor options clash issue in vignette.
- Updated documentation -
GermValue
,MeanGermTime
andTimsonsIndex
.
- Removed non-ASCII symbols in
inst/REFERENCES.bib
being used byRdpack
macro to enforce UTF-8 encoding. - Added inline citations in documentation with Rdpack
\insertCite{}{}
and replaced all\insertRef{}{}
with\insertAllCited{}
. - Fixed https link issue in vignette.
- Added mirror set command in vignette.
- Added
XML
,RCurl
andhttr
to suggests.
plot.FourPHFfit
- plot method forFourPHFfit
.
FourPHFfit
- Fixed code to accommodate changes in the new release ofbroom
package.FourPHFfit
- Separated plot method to new functionplot.FourPHFfit
.
- Fixed LATEX xcolor options clash issue in vignette.
- Fixed issue with missing pandoc in case of r-release-osx-x86_64.
- Fixed citation information.
- Added zenodo and rdocumentation badges.
- Added CRAN installation instructions in Readme.
- Added logo.
- First release
- Pre-release