| AIT.dist | Returns the distance between two compositional vectors using... |
| AIT.more | Used to provide additional information on various model... |
| AIT.obj | Used in 'solnp()' as the objective function to be minimized... |
| backward.elimination | Returns diet estimates corresponding to a sample of predators... |
| bal.diet.data | Sample example of balanced repeatability diet estimates data... |
| bal.rep.CI | Measure of Repeatability for Diet Estimates (Balanced Case) |
| bestBackwardModel | Finds the species combination with the best (lowest) IC value... |
| bestForwardModel | Finds the species combination with the best# (lowest) IC... |
| bestSubset | Find the pair of starting species with the best (lowest) IC... |
| beta.meths.CI | Returns individual confidence intervals and simultaneous... |
| beta.pval.k | Calculate p-value of a given prey type diet proportion under... |
| bias.all | Calculate bias correction for confidence intervals from... |
| bias.comp | Calculate bias correction for confidence intervals. |
| bisect.beta.lim | Find simultaneous and individual confidence intervals for... |
| CC | Fatty acid calibration coefficients. |
| chisq.CA | Called by 'create.d.mat()' to compute the chi-square... |
| chisq.dist | Returns the distance between two compositional vectors using... |
| comp.beta.pval.k | Calculate p-value corresponding to a specified null value... |
| comp.gen.pseudo.seals | Generate pseudo predators with ith predator having true diet... |
| comp.p.beta | Bootstrap statistic function: in this case it is the mean... |
| comp.rep | Repeatability in Diet Estimates |
| comp.Tstar.beta | Generate bootstrap replicates of diet proportion estimates... |
| conf.meth | Confidence Intervals for Diet Proportions |
| create.d.mat | Called by 'testfordiff.ind.boot.fun()' to create a matrix of... |
| cs_distance.mat | CALCULATE CS DISTANCE BETWEEN EACH TWO PREDATORS IN dataset |
| CS.more | Used to provide additional information on various model... |
| CS.obj | Used in 'solnp()' as the objective function to be minimized... |
| data.sim.beta | Bootstrap ran.gen function: |
| dummy | Roxygen commands |
| evaluateCombination | Get nll and IC values for a pair of species (this is used in... |
| evaluateModel | Get nll and IC values for a given model (note that the model... |
| FAset | List of fatty acids used in sample prey and predator data... |
| forward.selection | Returns diet estimates corresponding to a sample of predators... |
| gen.pseudo.seals | Generate pseudo predators with ith predator having true diet... |
| KL.dist | Returns the distance between two compositional vectors using... |
| KL.more | Used to provide additional information on various model... |
| KL.obj | Used in 'solnp()' as the objective function to be minimized... |
| likelihoodEstimates | Get simplified MLE estimates |
| mean_geometric | Returns the geometric mean of a compositional vector |
| MEANmeth | Returns the multivariate mean FA signature of each prey group... |
| mod.zeros.FA.sig | Modifies the zeros for a single FA signature using the... |
| mod.zeros.FA.sig.mat | Modifies the zeros for a sample of FA signatures using the... |
| multiplicativeReplacement | Multiplicative replacement of zeroes |
| opt.beta.lim | Find simultaneous confidence intervals for diet proportions... |
| p.beta | Bootstrap statistic function: in this case it is the mean... |
| p.MLE | Returns simplified MLE diet estimates corresponding to a... |
| p.MUFASA | Returns MUFASA diet estimates corresponding to a sample of... |
| POOLVARmeth | Computes within species variance-covariance matrices on... |
| p.QFASA | Returns QFASA diet estimates corresponding to a sample of... |
| predatorFAs | Predator fatty acid signatures. Each predator signature is a... |
| prey.cluster | Produces a dendrogram using distances between the mean FA... |
| preyFAs | Prey fatty acid signatures. Each prey signature is a row with... |
| prey.on.prey | Each prey fatty acid signature is systematically removed from... |
| pseudo.pred | Generate a pseudo predator by sampling with replacement from... |
| pseudo.pred.norm | Generate a pseudo predator parametrically from multivariate... |
| pseudo.pred.rep | FUNCTION TO GENERATE ns PSEUDO SEALS WHERE ns IS THE NUMBER... |
| pseudo.pred.table | FUNCTION TO GENERATE ns SEALS FOR EACH OF ny YEARS |
| pseudo.seal | Generate a single pseudo predator FA signature |
| p.sim.QFASA | Simultaneous estimation of diet composition and calibration... |
| p.SMUFASA | Simultaneous maximum unified fatty acid signature analysis |
| QFASA | QFASA: A package for Quantitative Fatty Acid Signature... |
| QFASA.const.eqn | Returns 'sum(alpha)' and used in 'solnp()'. |
| rho.boot.fun | RETURNS RHO AND THE BOOTSTRAP SAMPLE DETERMINED BY ind. |
| rho.jack.fun | FUNCTION TO BE PASSED TO bootstrap::jackknife. |
| root.beta | Find root (i.e. solve f(pio) = PVAL(pio) = alpha1 using... |
| split_prey | Splits prey database into a simulation set (1/3) and a... |
| testfordiff.ind.boot | Called by 'testfordiff.ind.pval()'. |
| testfordiff.ind.boot.fun | Called by 'testfordiff.ind.boot()'. |
| testfordiff.ind.pval | Test for a difference between two independent samples of... |
| Tstar.beta | Generate bootstrap replicates of diet proportion estimates... |
| two.factor.rep | Measure of (unadjusted) repeatability |
| unbal.diet.data | Sample example of unbalanced repeatability diet estimates... |
| unbal.rep.CI | Measure of Repeatability for Diet Estimates... |
| unbal.rho.boot.fun | RETURNS RHO AND THE BOOTSTRAP SAMPLE DETERMINED BY ind. |
| unbal.rho.jack.fun | FUNCTION TO BE PASSED TO bootstrap::jackknife. |
| unbal.two.factor.rep | Measure of (unadjusted) repeatability with missing values |
| uniroot.beta | Use uniroot() to find roots and compare with bisection... |
| zeroEstimates | Reintroduce excluded species to diet estimates as forced... |
