The transformed weighted linear regression estimator for species richness estimation

This function implements the transformed version of the species richness estimation procedure outlined in Rocchetti, Bunge and Bohning (2011).

wlrm_transformed(
  input_data,
  cutoff = NA,
  print = NULL,
  plot = NULL,
  answers = NULL
)

Arguments

input_data

An input type that can be processed by convert() or a phyloseq object

cutoff

Maximum frequency count to use

print

Deprecated; only for backwards compatibility

plot

Deprecated; only for backwards compatibility

answers

Deprecated; only for backwards compatibility

Value

An object of class alpha_estimate, or alpha_estimates for phyloseq objects

Note

While robust to many different structures, model is almost always misspecified. The result is usually implausible diversity estimates with artificially low standard errors. Extreme caution is advised.

References

Rocchetti, I., Bunge, J. and Bohning, D. (2011). Population size estimation based upon ratios of recapture probabilities. Annals of Applied Statistics, 5.

See also

breakaway; apples; wlrm_untransformed

Author

Amy Willis

Examples

wlrm_transformed(apples)
#> Estimate of richness from method wlrm_transformed:
#>   Estimate is 1179
#>  with standard error 28.18
#>   Confidence interval: (1131, 1243)
#>   Cutoff:  33
wlrm_transformed(apples, plot = FALSE, print = FALSE, answers = TRUE)
#> Estimate of richness from method wlrm_transformed:
#>   Estimate is 1179
#>  with standard error 28.18
#>   Confidence interval: (1131, 1243)
#>   Cutoff:  33