NEWS.md

In eggCounts: Hierarchical Modelling of Faecal Egg Counts

eggCounts 2.4

• Update to new rstan version for future compatibility

eggCounts 2.3

• No longer requiring integer correction factors

eggCounts 2.2, 2.2-1:

• Updated makevars files

• Fixed a bug in the unpaired model (thanks to Paul)

• Improved documentation

• Improved examples

• Improved printing of warning messages

eggCounts 2.1, 2.1-1, 2.1-2:

• Improved usability of fecr_stanExtra()

• Fixed a minor bug in stan2mcmc() for paired model

• Updated citation information, URL

• Updated Stan version requirement

eggCounts 2.0:

• Added individual efficacy model for paired design

• Added vignette

• Added functions for selecting priors in small sample size (<10) settings

• Added simplified model for small sample sizes in paired design

• Added fecr_stanExtra() to import external models hosted on gitHub

• Improved function documentations

• Modified default arguments: nsamples, nburnin, nchain, zeroInflation

• Fixed parameter sampling issue in using the unpaired model without zero inflation

• Added simple MCMC convergence diagnostic output based on split chain potential scale reduction factors

• Added possibility to not save all model parameters in fec_stan() and fecr_stan()

• Added possibility to simulate with different efficacy in simData2s()

• Re-named function fecr_probability() to fecr_probs()

• Added 'plot' argument in fecr_probs() to plot posterior density of reduction

• Added warnings in using fecrtCI() when all of post-treatment counts are zero

• Added warnings in using fec_stan() and fecr_stan() when divergent transitions occur

• Cleaned Stan models code

• Removed un-used dataset

eggCounts 1.4:

• Modified default arguments for fec_stan and fecr_stan

• Optimized package onLoad messages

• Added plotCounts function

• Corrected fec_stan help file examples (thanks to Ivailo)

• Corrected coding error with non-default prior for ziunpaired model (thanks to Anja)

eggCounts 1.3:

• Fixed bug in printing MCMC summaries for meanEPG

• Fixed implementation bug of the zero-inflation models that was in v1.2

• Fixed minor bug in printing warnings

• Added function to compute probability of reduction based on posterior density

• Added flexibility to un-constrain reduction between 0 and 1

• Updated citation information

eggCounts 1.2:

• Allowed direct extraction of summary output

• Fixed minor bug in validating correction factors

• Fixed minor bug in converting multiple mcmc chains

• Updated citation information

eggCounts 1.1, 1.1-1, 1.1-2:

• Updated documentation

• Removed redundant functions

• Updated LinkingTo version requirements

• Updated Stan program syntax

• Fixed minor bug in the mcmc output of the 1-sample zero-inflation model

eggCounts 1.0:

• MCMC inference migrated from Metropolis-Hastlings algorithm and Gibbs sampler to Stan modelling language.

• Further improved bug fix of version 0.4.

• Improved models.

• Full-support on zero-inflation models.

eggCounts 0.4, 0.4-1:

• Bug fixes introduced since version 0.1.

• Further improved bug fix of version 0.3.

• Alerts the user in case of atypical data through 'NOTE'.

• Added verboselevel functionality for detailed debugging.

• Improved help and added tests.

eggCounts 0.2, 0.3:

• stable release on CRAN

• Updated package structure: NEWS, ChangeLog and CITATION files.

• Bug fix: all "zero" draws from rgamma are captured and set to minrgamma=.Machine$double.eps. Thus numerical results are likely to change.

eggCounts documentation built on Oct. 15, 2023, 1:06 a.m.