germinationmetrics 0.1.8
UPDATED FUNCTIONS:
FirstGermTime, LastGermTime,
TimeSpreadGerm - Fixed issue with incorrect display of
results in case of intervals which are not in days (Thanks to D. Vijay
for Dunna.Vijay[at]icar.gov.in).FourPHFfit, plot.FourPHFfit
FourPHFfit.bulk and plot.FourPHFfit.bulk -
Replaced fitting using minpack.lm::nlsLM with
gslnls::gsl_nls.FourPHFfit.bulk and plot.FourPHFfit.bulk -
Fixed issue with plotting of cumulative data with
show.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.
OTHER NOTES:
- Added unit tests with
testthat.
- Fixed
inst/CITATION.
germinationmetrics 0.1.7
UPDATED FUNCTIONS:
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.
VIGNETTE:
- Resolved duplicate chunk labels.
OTHER NOTES:
- Updated documentation for
WeightGermPercent and
germination.indices to fix HTML validation problems.
germinationmetrics 0.1.6
NEW FUNCTIONS:
PeakGermPercent - Compute peak germination
percentage.
UPDATED FUNCTIONS:
FirstGermTime, LastGermTime and
PeakGermTime - Updated documentation with formula.EmergenceRateIndex - Depreciate erroneous
method argument options of melville and
melvillesantanaranal and replace them with
shmueligoldberg and sgsantanaranal
respectively. GermSpeedCorrected - Use germination
percentage instead of counts.EmergenceRateIndex, GermIndex,
GermSpeedCorrected, GermValue,
GermRateRecip and TimsonsIndex - Minor
documentation update.
VIGNETTE:
- Fixed fetching CRAN page for version history to fail gracefully when
access is down.
- Updated units in Table 3.
germinationmetrics 0.1.5
NEW FUNCTIONS:
plot.FourPHFfit.bulk - Wrapper function around
FourPHFfit for multiple samples.
UPDATED FUNCTIONS:
FourPHFfit - Added warning for low germination
percentages. Modified to return NA output for zero total
germination inputs with non-converging fits so as not to break
FourPHFfit.bulk.
VIGNETTE:
- Removed cairo dependency.
germinationmetrics 0.1.4
NEW FUNCTIONS:
FourPHFfit.bulk - Wrapper function around
FourPHFfit 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).
UPDATED FUNCTIONS:
FourPHFfit - Added more checks for the input arguments
umax, umin, xp,
tries and tmax.MeanGermPercent, MeanGermNumber,
GermSynchrony, GermUncertainty,
TimsonsIndex, GermRateGeorge,
GermSpeed, GermSpeedAccumulated,
FirstGermTime, GermValue,
PeakValue, WeightGermPercent,
t50, MeanGermRate, MeanGermTime,
germination.indices, FourPHFfit and
FourPHFfit.bulk - Fixed the check for uniformity of
intervals to handle non-integer values correctly. Closes issue
#3.(Thanks to Jonas Ohlsson [@jonasoh])TimsonsIndex and GermRateGeorge- Fixed to
handle interval data other than days.
VIGNETTE:
- 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).
OTHER NOTES:
- Error in case of non-uniform intervals converted to warning.
- Fixed documentation errors in
FourPHFfit and
CVGermTime.
- Updated documentation for
GermSpeed,
GermSpeedAccumulated, CUGerm
MeanGermRate, SEGermRate, CVG,
MeanGermTime, VarGermTime,
SEGermTime, GermUncertainty,
GermSynchrony, MeanGermPercent,
MeanGermNumber, WeightGermPercent,
TimsonsIndex, GermRateGeorge and
GermSynchrony.
- Converted all equations in Rd files to
MathJaxusing
mathjaxr
- Added long running examples to
\donttest in
germination.indices, plot.FourPHFfit,
gcdata and FourPHFfit.bulk.
germinationmetrics 0.1.3
NEW FUNCTIONS:
WeightGermPercent - Compute the Weighted germination
percentage.germination.indices - wrapper function to compute
germination indices in batch.
UPDATED FUNCTIONS:
CVGermTime - Fixed error in function name
(CVSEGermTime).TimsonsIndex - Fixed error in method name
(khanungar).GermSpeed and GermSpeedAccumulated -
Updated with option to use percentage germination in addition to
germination counts.GermSpeedCorrected - Updated with option to use
GermSpeedAccumulated in addition to
GermSpeed.GermValue - Updated with option to consider time from
start of test in addition to time from onset of germination.
VIGNETTE:
- Fixed LATEX xcolor options clash issue in vignette.
OTHER NOTES:
- Updated documentation -
GermValue,
MeanGermTime and TimsonsIndex.
germinationmetrics 0.1.2
OTHER NOTES:
- Removed non-ASCII symbols in
inst/REFERENCES.bib being
used by Rdpack 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 and httr to
suggests.
germinationmetrics 0.1.1
NEW FUNCTIONS:
plot.FourPHFfit - plot method for
FourPHFfit.
UPDATED FUNCTIONS:
FourPHFfit - Fixed code to accommodate changes in the
new release of broom package.FourPHFfit - Separated plot method to new function
plot.FourPHFfit.
VIGNETTE:
- Fixed LATEX xcolor options clash issue in vignette.
- Fixed issue with missing pandoc in case of
r-release-osx-x86_64.
OTHER NOTES:
- Fixed citation information.
- Added zenodo and rdocumentation badges.
- Added CRAN installation instructions in Readme.
- Added logo.
germinationmetrics 0.1.0
germinationmetrics
0.0.0.9000