Man pages for QFASA
Quantitative Fatty Acid Signature Analysis

AIT.distReturns the distance between two compositional vectors using...
AIT.moreUsed to provide additional information on various model...
AIT.objUsed in 'solnp()' as the objective function to be minimized...
bal.diet.dataSample example of balanced repeatability diet estimates data...
bal.rep.CIMeasure of Repeatability for Diet Estimates (Balanced Case)
beta.meths.CIReturns individual confidence intervals and simultaneous...
beta.pval.kCalculate p-value of a given prey type diet proportion under...
bias.allCalculate bias correction for confidence intervals from...
bias.compCalculate bias correction for confidence intervals.
bisect.beta.limFind simultaneous and individual confidence intervals for...
CCFatty acid calibration coefficients.
chisq.CACalled by 'create.d.mat()' to compute the chi-square...
chisq.distReturns the distance between two compositional vectors using...
comp.beta.pval.kCalculate p-value corresponding to a specified null value...
comp.gen.pseudo.sealsGenerate pseudo predators with ith predator having true diet...
comp.p.betaBootstrap statistic function: in this case it is the mean...
comp.repRepeatability in Diet Estimates
comp.Tstar.betaGenerate bootstrap replicates of diet proportion estimates...
conf.methConfidence Intervals for Diet Proportions
create.d.matCalled by 'testfordiff.ind.boot.fun()' to create a matrix of...
cs_distance.matCALCULATE CS DISTANCE BETWEEN EACH TWO PREDATORS IN dataset
CS.moreUsed to provide additional information on various model...
CS.objUsed in 'solnp()' as the objective function to be minimized...
data.sim.betaBootstrap ran.gen function:
dummyRoxygen commands
FAsetList of fatty acids used in sample prey and predator data...
gen.pseudo.sealsGenerate pseudo predators with ith predator having true diet...
KL.distReturns the distance between two compositional vectors using...
KL.moreUsed to provide additional information on various model...
KL.objUsed in 'solnp()' as the objective function to be minimized...
mean.geometricReturns the geometric mean of a compositional vector
MEANmethReturns the multivariate mean FA signature of each prey group...
mod.zeros.FA.sigModifies the zeros for a single FA signature using the...
mod.zeros.FA.sig.matModifies the zeros for a sample of FA signatures using the...
opt.beta.limFind simultaneous confidence intervals for diet proportions...
p.betaBootstrap statistic function: in this case it is the mean...
p.MUFASAReturns MUFASA diet estimates corresponding to a sample of...
POOLVARmethComputes within species variance-covariance matrices on...
p.QFASAReturns QFASA diet estimates corresponding to a sample of...
predatorFAsPredator fatty acid signatures. Each predator signature is a...
prey.clusterProduces a dendrogram using distances between the mean FA...
preyFAsPrey fatty acid signatures. Each prey signature is a row with...
prey.on.preyEach prey fatty acid signature is systematically removed from...
pseudo.predGenerate a pseudo predator by sampling with replacement from...
pseudo.pred.normGenerate a pseudo predator parametrically from multivariate...
pseudo.pred.repFUNCTION TO GENERATE ns PSEUDO SEALS WHERE ns IS THE NUMBER...
pseudo.pred.tableFUNCTION TO GENERATE ns SEALS FOR EACH OF ny YEARS
pseudo.sealGenerate a single pseudo predator FA signature
p.sim.QFASASimultaneous estimation of diet composition and calibration...
p.SMUFASAReturns SMUFASA calibration coefficient estimates and an...
QFASAQFASA: A package for Quantitative Fatty Acid Signature...
QFASA.const.eqnReturns 'sum(alpha)' and used in 'solnp()'.
rho.boot.funRETURNS RHO AND THE BOOTSTRAP SAMPLE DETERMINED BY ind.
rho.jack.funFUNCTION TO BE PASSED TO bootstrap::jackknife.
root.betaFind root (i.e. solve f(pio) = PVAL(pio) = alpha1 using...
split.preySplits prey database into a simulation set (1/3) and a...
testfordiff.ind.bootCalled by 'testfordiff.ind.pval()'.
testfordiff.ind.boot.funCalled by 'testfordiff.ind.boot()'.
testfordiff.ind.pvalTest for a difference between two independent samples of...
Tstar.betaGenerate bootstrap replicates of diet proportion estimates...
two.factor.repMeasure of (unadjusted) repeatability
unbal.diet.dataSample example of unbalanced repeatability diet estimates...
unbal.rep.CIMeasure of Repeatability for Diet Estimates...
unbal.rho.boot.funRETURNS RHO AND THE BOOTSTRAP SAMPLE DETERMINED BY ind.
unbal.rho.jack.funFUNCTION TO BE PASSED TO bootstrap::jackknife.
unbal.two.factor.repMeasure of (unadjusted) repeatability with missing values
uniroot.betaUse uniroot() to find roots and compare with bisection...
QFASA documentation built on July 21, 2021, 1:06 a.m.