abstract                Abstract Two propr Objects
aldex.cor               Correlate CLR with a Continuous Measurement
aldex2propr             Import 'ALDEx2' Object
alphaTheta              Calculate alpha Theta
alphaThetaW_old         Calculate Weighted Theta
alphaTheta_old          Calculate alpha Theta
calculateFDR            Calculate FDR Cutoffs
calculateFDR_old        Calculate FDR Cutoffs
calculateTheta          Calculate Theta
calculateThetaW_old     Calculate Weighted Theta
calculateTheta_old      Calculate Theta
caneToad.counts         Example Cane Toad Count Data
caneToad.groups         Example Cane Toad Group Data
dendroCheck             Dendrogram Plot Check
differentialCheck       Differential Proportionality Check
ggdend                  Dendrogram Plot Wrapper
ivar2index              Build Index from ivar Argument
lr2cor                  Correlate CLR with a Continuous Measurement
mail                    Mock Mail Count Data
marg.abs                Example Absolute mRNA
migraph                 'igraph' Helper Functions
multiplot               Plot Multiple Graphs
packageCheck            Package Check
pals                    Calculate PALs for Pairs
pd.d                    Example propd Object
pd.e                    Example propd Object
permuteTheta            Permute Theta
permuteTheta_false      Permute Theta
permuteTheta_naive      Permute Theta
permuteTheta_old        Permute Theta
permuteTheta_prime      Permute Theta
plotCheck               Plot Check
progress                Make Progress Bar
promptCheck             Feature Check
prop2prob               Calculate Probability from Proportionality
propd                   The propd Method
proportionality         Calculate Proportionality
propr                   The propr Package
proprALR                Calculates the additive log-ratio
                        transformation.
proprCLR                Calculates the centered log-ratio
                        transformation.
proprPairs              Recasts proportionality matrix as a table of
                        feature pairs.
proprPerb               Calculate proportionality metric rho (Erb
                        2016).
proprPhit               Calculate proportionality metric phi (Lovell
                        2015).
proprSym                Symmetrizes a proportionality matrix.
proprTri                Retrieve the lower left triangle of a
                        proportionality matrix.
proprVLR                Calculates the variance of the log of the
                        ratios.
ratios                  Recast Matrix as Feature Ratios
top.counts              Example propr Object
top.lr                  Example propr Object
visualize               Visualize Proportionality
