Calculations of Luck in Structured Population Models

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Documentation for package ‘luckieR’ version 0.1.0

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calcDistLRO	Distribution of lifetime reproductive output
calcDistLRONoEnv	Distribution of lifetime reproductive output
calcDistLROPostBreeding	Distribution of lifetime reproductive output
calcDistLROPostBreedingNoEnv	Distribution of lifetime reproductive output
calcDistOffspringCohort	The distribution of offspring types in a cohort produced at the stable population distribution
calcMoments	Calculates the mean, the 2nd and 3rd non-central moments, and the skewness of a lifetime reward
distLifespanCondR2	Distribution of lifespan conditional on LRO
distLifespanCondR2NoEnv	Distribution of lifespan conditional on LRO
distLifespanCondR2PostBreeding	Distribution of lifespan conditional on LRO
distLifespanCondR2PostBreedingNoEnv	Distribution of lifespan conditional on LRO
firstBreed	Probability of breeding and age at first breeding
flatten	Convert 4-d array to matrix
fundamental_matrix	Calculate the fundamental matrix
makeCondFailureKernel	Calculates the probability of not becoming successful before death and the transition kernel conditional on not becoming successful before death.
makeCondKernel	calculates the probability of becoming successful before death and the transition kernel conditional on becoming successful before death.
makeM	Make megamtrix
makeMCondLROThreshold	Utility function for calculating a kernel conditional on having LRO meeting or exceeding a threshold
makeMCondLROThresholdPostBreeding	Utility function for calculating a kernel conditional on having LRO meeting or exceeding a threshold
makePCondBreedDef3	Utility function for calculating a kernel conditional on breeding.
makePDef3	Utility function for calculating a kernel conditional on breeding.
make_AxT	Make the size x #kids transition matrix
meanConditionalLifespan	Mean Conditional Lifespan
meanConditionalTimes	Compute conditional time to arriving in a state
meanLifespan	Calculate mean lifespan
meanLRO	Calculate mean lifetime reproductive output (LRO)
mk_B	Make B matrix
mk_BPostBreeding	Make B matrix for a post-breeding census
partitionVarSkewnessEnvVar	Partitions variance and skewness of LRO
partitionVarSkewnessEnvVarAndTraits	Partitions variance and skewness of LRO
partitionVarSkewnessEnvVarPostBreeding	Partitions variance and skewness of LRO
partitionVarSkewnessNoEnvVar	Partitions variance and skewness of LRO
partitionVarSkewnessNoEnvVarPostBreeding	Partitions variance and skewness of LRO for a post-breeding census
popMeanVar	Population mean and variance of any attribute
probRepro	Probability of reproducing at least once, based on starting state
probTraitCondLRO	Distribution of a trait conditional on LRO
probTraitCondLRONoEnv	Distribution of a trait conditional on LRO
probTraitCondLROPostBreeding	Distribution of a trait conditional on LRO
probTraitCondLROPostBreedingNoEnv	Distribution of a trait conditional on LRO
p_xT	Helper function used for calculating size x #kids transition matrices
skewLifespan	Calculate skewness of lifespan
skewLRO	Calculate skew in lifetime reproductive output
stable_dist	Calculate the stable state distribution
traitAve	Calculates an average over a user-provided distribution
traitMu3	Calculates the third central moment over a user-provided distribution
traitVar	Calculates a variance over a user-provided distribution
unfold	Convert a megamatrix to an array
unvec	Convert a vector to a matrix
varConditionalLifespan	Variance of Conditional Lifespan
varConditionalTimes	Variance in conditional time to reach state i from state j
varLifespan	Calculate variance of lifespan
varLRO	Calculate variance in lifetime reproductive output
vec	Convert a matrix to a vector