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occumb  

Site Occupancy Modeling for Environmental DNA Metabarcoding
View on CRAN: Click here


Download and install occumb package within the R console
Install from CRAN:
install.packages("occumb")

Install from Github:
library("remotes")
install_github("cran/occumb")

Install by package version:
library("remotes")
install_version("occumb", "1.3.0")



Attach the package and use:
library("occumb")
Maintained by
Keiichi Fukaya
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2023-09-23
Latest Update: 2025-07-16
Description:
Fits multispecies site occupancy models to environmental DNA metabarcoding data collected using spatially-replicated survey design. Model fitting results can be used to evaluate and compare the effectiveness of species detection to find an efficient survey design. Reference: Fukaya et al. (2022) .
How to cite:
Keiichi Fukaya (2023). occumb: Site Occupancy Modeling for Environmental DNA Metabarcoding. R package version 1.3.0, https://cran.r-project.org/web/packages/occumb. Accessed 07 Oct. 2026.
Previous versions and publish date:
(2026-07-09 06:36), 1.0.1 (2023-09-23 17:20), 1.0.2 (2023-10-19 13:40), 1.0.3 (2024-01-08 20:40), 1.1.0 (2024-03-26 07:30), 1.2.0 (2025-05-24 17:40), 1.2.1 (2025-07-16 11:30), 1.2.2 (2026-01-09 17:00)
Other packages that cited occumb R package
View occumb citation profile
Other R packages that occumb depends, imports, suggests or enhances
Complete documentation for occumb
Functions, R codes and Examples using the occumb R package
Some associated functions: eval_util_L . eval_util_R . fish . fish_raw . get_posterior . gof . list_cond_L . list_cond_R . occumb . occumbData . plot-occumbFit-method . plot-occumbGof-method . summary-occumbData-method . summary-occumbFit-method . 
Some associated R codes: classes.R . fish.R . fish_raw.R . get_posterior.R . gof.R . occumb.R . occumbData.R . plot.R . show.R . summary.R . utility.R . utils.R .  Full occumb package functions and examples
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