Ecosyste.ms: Issues

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GitHub / pbs-assess/sdmTMB issues and pull requests

#387 - add CAIC and EDF calcs

Pull Request - State: open - Opened by James-Thorson-NOAA about 23 hours ago

#383 - EDF and cAIC

Issue - State: open - Opened by James-Thorson-NOAA 7 days ago - 2 comments

#380 - get_index not working with bias_correct = TRUE

Issue - State: closed - Opened by chat29 15 days ago - 4 comments

#377 - Error in `check_time_class()`

Issue - State: open - Opened by javierlenzi about 1 month ago - 1 comment

#372 - Cross validation function does not seem to consider offset in model

Issue - State: closed - Opened by marchtaylor 2 months ago - 4 comments

#371 - Add warning messages when components are collapsing to 0

Pull Request - State: closed - Opened by ericward-noaa 3 months ago

#371 - Add warning messages when components are collapsing to 0

Pull Request - State: closed - Opened by ericward-noaa 3 months ago

#370 - sdmTMB_simulate issue for very coarse mesh

Issue - State: closed - Opened by fhui28 3 months ago - 4 comments

#370 - sdmTMB_simulate issue for very coarse mesh

Issue - State: closed - Opened by fhui28 3 months ago - 4 comments

#368 - Using sdmTMB in parallel

Issue - State: closed - Opened by fhui28 3 months ago - 2 comments

#366 - Error in applying visreg to fitted model

Issue - State: closed - Opened by mdmazur 3 months ago - 4 comments

#365 - make_mesh cryptic fail when NA in coordinates

Issue - State: closed - Opened by lionel-ign 3 months ago - 2 comments

#363 - Problem in SVC vignette

Issue - State: closed - Opened by joshcullen 3 months ago - 6 comments

#361 - Multispecies / multiresponse vignette

Pull Request - State: open - Opened by ericward-noaa 3 months ago

#351 - Fix coef() to work with delta models

Issue - State: closed - Opened by ericward-noaa 6 months ago - 1 comment

#350 - Predictions for `truncated_nbinom2` models

Issue - State: closed - Opened by tom-peatman 6 months ago - 10 comments

#348 - Add effective area occupied calculations in .cpp

Issue - State: closed - Opened by seananderson 6 months ago - 1 comment

#347 - Allow the 'area' argument to take a column name

Issue - State: open - Opened by seananderson 6 months ago

#346 - Add cli progress bars where appropriate

Issue - State: closed - Opened by seananderson 6 months ago - 1 comment

#345 - Drop the 'proj' section of the .cpp template

Issue - State: open - Opened by seananderson 6 months ago

#344 - Update README.Rmd

Pull Request - State: closed - Opened by francisvolh 6 months ago - 2 comments

#343 - Release sdmTMB 0.6.0

Issue - State: closed - Opened by seananderson 6 months ago

#342 - Predictions with new data from delta models with random intercepts

Issue - State: closed - Opened by tom-peatman 7 months ago - 3 comments

#340 - fix delta-gamma binomial link for type = 'poisson-link'

Pull Request - State: closed - Opened by jdunic 7 months ago

#339 - Expanding abundance when fitting Bernoulli-cloglog model

Issue - State: open - Opened by James-Thorson-NOAA 7 months ago - 2 comments

#338 - get_index() over alternate time variable?

Issue - State: closed - Opened by seanhardison1 7 months ago - 3 comments

#338 - get_index() over alternate time variable?

Issue - State: closed - Opened by seanhardison1 7 months ago - 3 comments

#337 - Add names of random effects in tidy()

Issue - State: open - Opened by seananderson 7 months ago - 1 comment

#336 - Simplify extra time implementation

Pull Request - State: closed - Opened by seananderson 8 months ago

#333 - Add gengamma rqr

Pull Request - State: closed - Opened by jdunic 8 months ago

#329 - Simplify extra time implementation

Issue - State: closed - Opened by seananderson 8 months ago

#325 - Release sdmTMB 0.5.0

Issue - State: closed - Opened by seananderson 8 months ago - 1 comment

#324 - Abs (gradients)

Pull Request - State: closed - Opened by ericward-noaa 8 months ago - 1 comment

#323 - Make get_index() smarter about extra time slices and area argument

Issue - State: closed - Opened by seananderson 9 months ago - 2 comments

#322 - Add RMSE and MAE sdmTMB_cv examples to cross validation vignette

Issue - State: open - Opened by seanhardison1 9 months ago - 3 comments

#321 - loosen residual test tolerance slightly

Pull Request - State: closed - Opened by bbolker 9 months ago - 1 comment

#319 - Add tidy to sdmTMB_cv

Issue - State: open - Opened by ericward-noaa 9 months ago - 1 comment

#318 - Add argument to _mix() families for fixed proportion?

Issue - State: open - Opened by seananderson 9 months ago - 1 comment

#311 - Adding `getsd = TRUE` to `sdmTMBcontrol`

Issue - State: closed - Opened by James-Thorson-NOAA 9 months ago - 2 comments

#309 - hardcode log-log link in clean name for type= "poisson-link"

Pull Request - State: closed - Opened by Lewis-Barnett-NOAA 9 months ago - 1 comment

#303 - Release sdmTMB 0.4.3

Issue - State: closed - Opened by seananderson 10 months ago - 6 comments

#299 - Add new message about time

Pull Request - State: closed - Opened by ericward-noaa 10 months ago

#297 - MCMC samples don't work with `extra_time`

Issue - State: closed - Opened by ericward-noaa 10 months ago - 1 comment

#296 - Add `verbose` to check.R

Pull Request - State: closed - Opened by ericward-noaa 10 months ago

#295 - text edits to standardize reference formats

Pull Request - State: closed - Opened by Lewis-Barnett-NOAA 10 months ago

#292 - Implementing standard curve models for eDNA applications

Pull Request - State: open - Opened by ericward-noaa 10 months ago

#290 - Add `type` argument to delta families

Issue - State: closed - Opened by seananderson 10 months ago - 2 comments

#289 - Release sdmTMB 0.4.2

Issue - State: closed - Opened by seananderson 11 months ago - 1 comment

#287 - Push an update to CRAN to force binary rebuilds

Issue - State: closed - Opened by seananderson 11 months ago - 1 comment

#286 - Gengamma

Pull Request - State: closed - Opened by James-Thorson-NOAA 11 months ago - 3 comments

#280 - Check for factor random intercept columns in newdata and add tests, fixes #278

Pull Request - State: closed - Opened by sebpardo about 1 year ago - 1 comment

#279 - `predict()` for a model with spatially varying coefficients requires `newdata`

Issue - State: closed - Opened by ecophilina about 1 year ago - 3 comments

#274 - What should predict.sdmTMB return when offset is left NULL?

Issue - State: open - Opened by seananderson about 1 year ago - 1 comment

#271 - Release sdmTMB 0.4.1

Issue - State: closed - Opened by seananderson about 1 year ago

#269 - Factor handling for Spatially Varying Coefficient models

Issue - State: closed - Opened by ericward-noaa about 1 year ago - 1 comment

#268 - Update residual-checking.Rmd

Pull Request - State: closed - Opened by ericward-noaa about 1 year ago - 3 comments

#267 - Add delta models section to model description vignette

Issue - State: open - Opened by seananderson about 1 year ago

#266 - check html5 workflow

Pull Request - State: closed - Opened by seananderson about 1 year ago

#265 - rgdal archived

Issue - State: closed - Opened by rsbivand about 1 year ago - 1 comment

#264 - Update print.R

Pull Request - State: closed - Opened by ericward-noaa about 1 year ago - 1 comment

#263 - Add option to turn off spatial/spatiotemporal fields if they 'collapse'

Issue - State: open - Opened by seananderson about 1 year ago - 1 comment

#262 - Update cross-val.R

Pull Request - State: closed - Opened by ericward-noaa about 1 year ago

#259 - cross-validation vignette needs updating

Issue - State: open - Opened by Lewis-Barnett-NOAA about 1 year ago - 3 comments

#257 - Let spatially varying coefficients have their own ranges/kappas

Issue - State: open - Opened by seananderson about 1 year ago - 1 comment

#256 - Add R2 function

Issue - State: open - Opened by seananderson about 1 year ago - 3 comments

#255 - Interactions with get_index

Issue - State: closed - Opened by MikkoVihtakari about 1 year ago - 3 comments

#253 - Approximate memory usage?

Issue - State: closed - Opened by ColCarroll about 1 year ago - 4 comments

#250 - Finish multivariate random walk implementation

Issue - State: open - Opened by seananderson over 1 year ago

#249 - Make emmeans work with delta models

Issue - State: open - Opened by seananderson over 1 year ago

#248 - Enhance Poisson-link model description and write vignette

Issue - State: closed - Opened by seananderson over 1 year ago - 2 comments
Labels: enhancement

#245 - Calculating index values

Issue - State: closed - Opened by Braulio-Tapia over 1 year ago

#244 - Newton optimizer failing on MacOS

Issue - State: closed - Opened by nafreymueller over 1 year ago - 4 comments

#243 - Expand unit testing

Issue - State: closed - Opened by seananderson over 1 year ago
Labels: jss

#242 - Deal with new CRAN clang-UBSAN additional issue

Issue - State: closed - Opened by seananderson over 1 year ago - 1 comment
Labels: jss

#241 - Add coef() and vcov()

Issue - State: closed - Opened by seananderson over 1 year ago - 2 comments
Labels: jss

#240 - Add standard errors on sigma params etc. in tidy

Issue - State: closed - Opened by seananderson over 1 year ago
Labels: jss

#239 - Implement cross validation for delta families

Issue - State: closed - Opened by seananderson over 1 year ago - 1 comment

#238 - Facing error while prediction for a presence model

Issue - State: closed - Opened by rahulkgour over 1 year ago - 2 comments