fido 1.1.0
- Updating the basset model to allow for additive Gaussian processes
- Updating the random seed generation
fido 1.0.4
CRAN release: 2023-03-24
- changing default optimizer (lbfgs rather than adam), adam is more sensitive to random seed
- adding new r2 methods for calculating Bayesian R2 for pibble and basset models
- predict.bassetfit now accepts a newdata=NULL argument to predict on training set
bug fixes
- fixing a few discrepancies with base R commands (print, summary, etc).
fido 1.0.3
CRAN release: 2022-08-23
bug fixes
- Updating documentation under the newest version of R (4.2.1)
fido 1.0.2
CRAN release: 2022-07-06
bug fixes
- Removing a timing test because it is irrelevant and can fail under certain set-ups.
fido 1.0.1
CRAN release: 2022-05-17
bug fixes
- Changing phyloseq from imports to depends, was causing issues installing from CRAN.
- Fixing bug in configure.ac that was causing openmp parallelization to not work on some machines.
fido 1.0.0
CRAN release: 2022-02-16
More changes to make the final push for CRAN! Changes include:
- Updating the description file to match CRAN’s standards
- Removing the dependency to driver
- Linking the one remote package (MicrobeDS) to a separate CRAN-like Github repo using the “drat” package. This is to match CRAN’s policy against no use of “Remotes”.
- Precomputing the longer running vignettes, cutting R CMD check times in half. The original vignettes can be found in the vignettes folder with a “.orig” extension for reproducibility.
fido 0.1.14
- More changes to prepare for version 0.2 (and CRAN soon), including:
- Lots of cleaning of small warnings and notes
- Fixing erorrs with the base plot function
- Cleaning up some manual entries
- Fixing the errors posted on Github (to_ilr among others)
fido 0.1.13
- tons of tiny changes to prepare for version 0.2 (and ultimately CRAN) featured changes include:
- plot and coef methods for *fit objects now abide by CRAN generic naming scheme - may cause some problems if prior code had positional arguments to these functions
- now being tested using travis integration (vignettes not tested there due to time constraints)
- merged Kim’s fixes to maltipoo code (will almost certainly change maltipoo results; there had been a bug in prior versions)
- Internally stored mallard and mallard_family data now import as
mallardandmallard_familyrather than both importing asps. Solved a R CMD CHECK warning. - Lots of tiny updates to documentation
fido 0.1.12
- orthus added for jointly fitting multinomial and gaussian data (e.g., 16S microbiome and metabolomics data)
fido 0.1.11
- Kim fixed windows installation problems (Thanks Kim!)
- Fixed bug in predict that was effecting ppc
- Fixed error when pars!=NULL in summary
- lambda_to_iqlr now had default behavior when focus.cov=NULL
- Fixed issue with Xi=NULL in pibblefit when trying to transform
- small changes to make pibble wrapper around c++ functions faster