NEWS.md

In fukayak/occumb: Site Occupancy Modeling for Environmental DNA Metabarcoding

occumb (development version)

• Add test-coverage workflow
• Add snapshot tests for plot() and summary()
• Fix an issue with an error message by character covariates.
• Add stats = chi_squared option to gof()
• Fix an issue with having . with other covariates in formula
• Fix an issue with throwing a warning message instead of an error
• Change error message for validate_occumbData
• Add a test to throw an error when integer is too large
• Add tests for gof under unbalanced designs
• Fix an issue with sigma's default value.
• Add 'data.frame' as an input of occumbData.
• Fix a bug in attribute assignment in get_post_samples and get_post_summary.
• Fixed get_post_samples() not to output a vector.
• Add a data frame output option in get_post_samples() and get_post_summary().

occumb 1.1.0 (2024/3/26)

• Add predict() method for occumbFit class.
• Fix summary() method for occumbFit: no longer outputs comments on convergence and DIC.
• Internal changes to fix a number of known bugs, more helpful messages, and additional testing.
• Improved function documentation and vignette.

occumb 1.0.3 (2024/01/04)

• Internal changes to fix a number of known bugs, more helpful error messages, and additional testing.
• Improved function documentation.

occumb 1.0.2 (2023/10/19)

• Fix license issue: occumb is licensed under GPLv3.
• Some document fixes.

occumb 1.0.1 (2023/09/21)

• This patch release fixes issues with plot() and summary() methods not being exported correctly.
• It also improves gof() to accept additional arguments for figure formatting.

occumb 1.0.0 (2023/09/14)

• Add z, theta, and phi arguments to eval_util_L().
• Add psi, theta, and phi arguments to eval_util_R().
• Fix eval_util_R() to account for site-heterogeneity of parameters.
• Remove loglik() function from the package.
• Some bug fixes, internal changes, and document improvements.

occumb 0.6.1 (2023/07/27)

• Add model specification vignette.
• Some fixes and improvements of documentation.

occumb 0.6.0 (2023/07/20)

• Add package vignette.
• Add fish and fish_raw data.
• Add occumbGof class.
• Add and fix methods for occumbData, occumbFit, and occumbGof classes.
• Change defaults for cores arguments for gof(), eval_util_L(), and eval_util_R() functions.
• Some bug fixes, internal changes, and documentation improvements.

occumb 0.5.1 (2023/04/27)

• Add pkgdown website.
• Some bug fixes and internal changes.

occumb 0.5.0 (2023/04/26)

• Add get_post_samples() and get_post_summary() functions.
• Add option for parallel computation in gof() function.
• Fix some bugs in occumb() functions.
• Fix an issue of parallel computation of eval_util_L() and eval_util_R() functions on Windows.

occumb 0.4.2 (2022/12/13)

• Fix an issue of parallel computation of eval_util_L() and eval_util_R() functions on Windows.

occumb 0.4.1 (2022/11/16)

• Fix some computational issues in eval_util_L() and eval_util_R() functions.

occumb 0.4.0 (2022/06/03)

• Add eval_util_L() and eval_util_R() functions.
• Add list_cond_L() and list_cond_R() functions.

occumb 0.3.0 (2022/03/31)

• Add gof() function.
• Add loglik() function.
• Add ... argument to occumb() function.
• Add data field in occumbFit class.

occumb 0.2.1 (2021/11/21)

• A few bug fixes.
• Add validations for the inputs of occumb().

occumb 0.2.0 (2021/11/19)

• Change occumbData class specification and occumbData() function.
• Add occumb() function.
• Add methods for occumbFit class: plot, print, summary.

occumb 0.1.0 (2021/9/10)

• Initial development of occumb package.
• Add occumbData() function.

fukayak/occumb documentation built on April 17, 2025, 11:50 a.m.