MeanGermRate | R Documentation |
Compute the following metrics:
MeanGermRate
Mean germination rate (\mjseqn\overlineV) \insertCitelabouriau_germination_1976,labouriau_uma_1983,ranal_how_2006germinationmetrics.
VarGermRate
Variance of germination rate (\mjseqns_V^2) \insertCitelabouriau_uma_1983,ranal_how_2006germinationmetrics.
SEGermRate
Standard error of germination rate (\mjseqns_\overlineV) \insertCitelabouriau_uma_1983,ranal_how_2006germinationmetrics.
CVG
Coefficient of velocity/rate of germination or Kotowski's coefficient of velocity (\mjseqnCVG) \insertCitekotowski_temperature_1926,nichols_two_1968,labouriau_uma_1983,scott_review_1984,bewley_seeds_1994germinationmetrics.
GermRateRecip
Germination rate as reciprocal of median time (\mjseqnv_50) \insertCitewent_experimental_1957,labouriau_uma_1983,ranal_how_2006germinationmetrics.
MeanGermRate(germ.counts, intervals, partial = TRUE)
CVG(germ.counts, intervals, partial = TRUE)
VarGermRate(germ.counts, intervals, partial = TRUE)
SEGermRate(germ.counts, intervals, partial = TRUE)
GermRateRecip(
germ.counts,
intervals,
partial = TRUE,
method = c("coolbear", "farooq")
)
germ.counts |
Germination counts at each time interval. Can be partial
or cumulative as specified in the argument |
intervals |
The time intervals. |
partial |
logical. If |
method |
The method for computing median germination time. Either
|
MeanGermRate
computes the mean germination rate
(\mjseqn\overlineV) according to the following formula
\insertCitelabouriau_germination_1976,labouriau_uma_1983,ranal_how_2006germinationmetrics.
V = \frac\sum_i=1^kN_i\sum_i=1^kN_iT_i
Where, \mjseqnT_i is the time from the start of the experiment to the \mjseqnith interval, \mjseqnN_i is the number of seeds germinated in the \mjseqnith time interval (not the accumulated number, but the number corresponding to the \mjseqnith interval), and \mjseqnk is the total number of time intervals.
It is the inverse of mean germination time (\mjseqn\overlineT).
\mjsdeqn\overlineV = \frac1\overlineT
VarGermRate
computes the variance of germination rate
(\mjseqns_V^2) according to the following formula
\insertCitelabouriau_uma_1983,ranal_how_2006germinationmetrics.
s_V^2 = \overlineV^4 \times s_T^2
Where, \mjseqns_T^2 is the variance of germination time.
SEGermRate
computes the standard error of germination time
(\mjseqns_\overlineV) according to the following formula
\insertCitelabouriau_uma_1983,ranal_how_2006germinationmetrics.
s_\overlineV = \sqrt\fracs_V^2\sum_i=1^kN_i
Where, \mjseqnN_i is the number of seeds germinated in the \mjseqnith time interval (not the accumulated number, but the number corresponding to the \mjseqnith interval), and \mjseqnk is the total number of time intervals.
CVG
computes the coefficient of velocity/rate of germination or
Kotowski's coefficient of velocity (\mjseqnCVG) according to the following
formula
\insertCitekotowski_temperature_1926,nichols_two_1968,labouriau_uma_1983,scott_review_1984,bewley_seeds_1994germinationmetrics.
CVG = \frac\sum_i=1^kN_i\sum_i=1^kN_iT_i \times 100
\mjsdeqnCVG = \overlineV \times 100
Where, \mjseqnT_i is the time from the start of the experiment to the \mjseqnith interval, \mjseqnN_i is the number of seeds germinated in the \mjseqnith time interval (not the accumulated number, but the number corresponding to the \mjseqnith interval), and \mjseqnk is the total number of time intervals.
GermRateRecip
computes the germination rate (\mjseqnv_50) as the
reciprocal of the median germination time (\mjseqnt_50)
\insertCitewent_experimental_1957,labouriau_uma_1983,ranal_how_2006germinationmetrics
according to the methods of
\insertCitecoolbear_effect_1984;textualgerminationmetrics (Specified by
the argument method = "coolbear"
) or
\insertCitefarooq_thermal_2005;textualgerminationmetrics (Specified by
the argument method = "farooq"
) as follows.
v_50 = \frac1t_50
For MeanGermRate
, the mean germination rate value as
\mjseqn\mathrmtime^-1.
For VarGermTime
, the variance of germination rate value as
\mjseqn\mathrmtime^-2.
For SEGermTime
, the standard error of germination rate as
\mjseqn\mathrmtime^-1.
For CVG
, the value of Coefficient of of velocity/rate of germination
or Kotowski's coefficient of velocity as % \mjseqn\mathrmtime^-1.
For GermRateRecip
, the value of germination rate as
\mjseqn\mathrmtime^-1.
MeanGermTime
,
t50
x <- c(0, 0, 0, 0, 4, 17, 10, 7, 1, 0, 1, 0, 0, 0)
y <- c(0, 0, 0, 0, 4, 21, 31, 38, 39, 39, 40, 40, 40, 40)
int <- 1:length(x)
# From partial germination counts
#----------------------------------------------------------------------------
MeanGermRate(germ.counts = x, intervals = int)
CVG(germ.counts = x, intervals = int)
VarGermRate(germ.counts = x, intervals = int)
SEGermRate(germ.counts = x, intervals = int)
GermRateRecip(germ.counts = x, intervals = int, method = "coolbear")
GermRateRecip(germ.counts = x, intervals = int, method = "farooq")
# From cumulative germination counts
#----------------------------------------------------------------------------
MeanGermRate(germ.counts = y, intervals = int, partial = FALSE)
CVG(germ.counts = y, intervals = int, partial = FALSE)
VarGermRate(germ.counts = y, intervals = int, partial = FALSE)
SEGermRate(germ.counts = y, intervals = int, partial = FALSE)
GermRateRecip(germ.counts = y, intervals = int,
method = "coolbear", partial = FALSE)
GermRateRecip(germ.counts = y, intervals = int,
method = "farooq", partial = FALSE)
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