bbsBayes/bbsBayes issues and pull requests

#199 - Archived on CRAN due to 'geofacet' package being archived

Issue - State: open - Opened by BrandonEdwards 11 months ago - 1 comment

#198 - Error installing because of jags

Issue - State: closed - Opened by mikeyEcology about 2 years ago - 3 comments

#197 - Fix encoding for `fetch_bbs_data()` and `stratify()`

Pull Request - State: closed - Opened by steffilazerte about 2 years ago - 7 comments

#196 - Understanding `lump.csv` for `stratify()`

Issue - State: closed - Opened by steffilazerte about 2 years ago - 1 comment

#195 - `stratify()` with `lump_species_forms` duplicates non-unidentified birds

Issue - State: closed - Opened by steffilazerte about 2 years ago - 4 comments

#194 - STAN Models for bbsBayes

Pull Request - State: open - Opened by steffilazerte about 2 years ago - 4 comments

#193 - alternative fix for fetch_bbs_data - maybe fixes #192

Pull Request - State: closed - Opened by AdamCSmithCWS over 2 years ago - 1 comment

#192 - fetch_bbs_data not working (again)

Issue - State: closed - Opened by AdamCSmithCWS over 2 years ago - 11 comments

#191 - Having trouble with fetch_bbs_data()

Issue - State: closed - Opened by tmeeha over 2 years ago - 5 comments

#190 - fetch_bbs_data now allows user to fetch the most recent 2022 release …

Pull Request - State: closed - Opened by AdamCSmithCWS over 2 years ago

#189 - correction to the likelihood statement in the slope models (missing i…

Pull Request - State: closed - Opened by AdamCSmithCWS over 2 years ago

#188 - Stan-ify

Issue - State: closed - Opened by AdamCSmithCWS over 2 years ago - 1 comment

#187 - Re-opening Model updating request

Pull Request - State: closed - Opened by AdamCSmithCWS over 2 years ago

#186 - Revert "Model updating (#185)"

Pull Request - State: closed - Opened by BrandonEdwards almost 3 years ago

#185 - Model updating

Pull Request - State: closed - Opened by AdamCSmithCWS about 3 years ago - 2 comments

#184 - Correcting the scaling of smooth trajectories

Pull Request - State: closed - Opened by AdamCSmithCWS over 3 years ago

#183 - adding a load-map function

Pull Request - State: closed - Opened by AdamCSmithCWS over 3 years ago

#182 - deprecate prepare_jags_data() in favour of prepare_data()

Issue - State: closed - Opened by BrandonEdwards over 3 years ago

#181 - figure out workaround to sbtools issue

Issue - State: closed - Opened by BrandonEdwards almost 4 years ago - 1 comment

#180 - Small errors in the documentation

Issue - State: closed - Opened by AdamCSmithCWS almost 4 years ago

#179 - fixing error in generate trends function, so that it properly counts the number of routes.

Pull Request - State: closed - Opened by AdamCSmithCWS almost 4 years ago

#178 - add start up message for data version, if it exists

Issue - State: open - Opened by BrandonEdwards almost 4 years ago

#177 - allow for fuzzy matching when choosing species

Issue - State: open - Opened by BrandonEdwards almost 4 years ago
Labels: enhancement

#176 - allow user to define time definition to be carried throughout

Issue - State: closed - Opened by BrandonEdwards almost 4 years ago - 1 comment

#175 - add progress bar for generate_indices()

Issue - State: open - Opened by BrandonEdwards almost 4 years ago

#174 - multi-lingual support for species names

Issue - State: open - Opened by BrandonEdwards almost 4 years ago
Labels: enhancement

#173 - Colour-blind friendly palette for maps and plots

Issue - State: closed - Opened by BrandonEdwards almost 4 years ago
Labels: enhancement

#172 - Fix error in stratify function for bbs_cws stratification

Pull Request - State: closed - Opened by AdamCSmithCWS about 4 years ago

#171 - Updating the Readme file to include an example for generating trends and indices for customized groupings of the existing strata

Pull Request - State: closed - Opened by AdamCSmithCWS about 4 years ago

#170 - Develop the capacity for a user-defined stratification

Issue - State: open - Opened by AdamCSmithCWS about 4 years ago

#169 - Update pointers to FTP --> ScienceBase

Issue - State: open - Opened by trashbirdecology about 4 years ago
Labels: follow-up

#168 - fetch_bbs_data stop level counts issue

Pull Request - State: closed - Opened by celatimer over 4 years ago

#167 - add a function to extract the strata maps

Issue - State: closed - Opened by AdamCSmithCWS over 4 years ago - 3 comments

#166 - Error on fetch_bbs_data

Issue - State: closed - Opened by AdamCSmithCWS over 4 years ago

#165 - Provide option to download multiple data versions

Issue - State: open - Opened by AdamCSmithCWS over 4 years ago

#164 - fetch data not working

Issue - State: closed - Opened by AdamCSmithCWS over 4 years ago - 1 comment

#163 - Fix travis CI build error

Issue - State: closed - Opened by BrandonEdwards over 4 years ago
Labels: Travis CI

#162 - I've modified the stratify function to optionally lump some of the unidentified and split/lumped species (e.g., NOFL)

Pull Request - State: closed - Opened by AdamCSmithCWS over 4 years ago - 1 comment

#161 - BBS data retrieval for 1966-2019 from Science Base rather than FTP

Issue - State: closed - Opened by BrandonEdwards over 4 years ago - 1 comment
Labels: bug

#160 - Merge Adams branch into Brandons to fix error in stratum_weighting of indices calculation

Pull Request - State: closed - Opened by AdamCSmithCWS over 4 years ago

#159 - Avoid using `= T` throughout functions and documentation.

Issue - State: closed - Opened by trashbirdecology over 4 years ago - 1 comment
Labels: minor fix

#158 - Clarify progress notification messages in `run_model()`

Issue - State: closed - Opened by trashbirdecology over 4 years ago - 1 comment
Labels: enhancement

#157 - Add tests

Issue - State: open - Opened by trashbirdecology over 4 years ago - 1 comment

#156 - Documentation for `fetch_bbs_data()`

Issue - State: closed - Opened by trashbirdecology over 4 years ago

#155 - Create runnable examples for CRAN

Issue - State: closed - Opened by BrandonEdwards over 4 years ago
Labels: documentation

#154 - geofacet_plot: margin not found

Issue - State: closed - Opened by BrandonEdwards over 4 years ago
Labels: bug

#153 - deprecate plot_cont_indices

Issue - State: closed - Opened by BrandonEdwards over 4 years ago

#152 - deprecate generate_regional_indices() and deprecate_regional_trends()

Issue - State: closed - Opened by BrandonEdwards over 4 years ago - 1 comment

#151 - figure out a way to add a model data to data that can be installed with package

Issue - State: open - Opened by BrandonEdwards over 4 years ago

#150 - remove sample data

Issue - State: closed - Opened by BrandonEdwards over 4 years ago

#149 - deprecate WAIC

Issue - State: closed - Opened by BrandonEdwards over 4 years ago

#148 - deprecate generate_strata_indices() and generate_strata_trends()

Issue - State: closed - Opened by BrandonEdwards over 4 years ago

#147 - deprecate generate_cont_indices and generate_cont_trends

Issue - State: closed - Opened by BrandonEdwards over 4 years ago

#146 - GAM models could integrate a formal change point analysis

Issue - State: open - Opened by AdamCSmithCWS over 4 years ago

#145 - I've added some improved documentation especially the readme file

Pull Request - State: closed - Opened by AdamCSmithCWS almost 5 years ago

#144 - remove warning message from geofacet function

Issue - State: closed - Opened by AdamCSmithCWS almost 5 years ago - 1 comment

#143 - consider adding a nesting facets to the geofacets function

Issue - State: closed - Opened by AdamCSmithCWS almost 5 years ago - 1 comment

#142 - Adding the functions necessary for the entire CWS annual analysis

Pull Request - State: closed - Opened by AdamCSmithCWS almost 5 years ago

#141 - Downloading stop-level data should not over-write route-level data

Issue - State: closed - Opened by AdamCSmithCWS almost 5 years ago

#140 - Add automatic convergence-checks

Issue - State: open - Opened by AdamCSmithCWS about 5 years ago - 4 comments

#139 - New Hex Sticker?

Issue - State: open - Opened by AdamCSmithCWS about 5 years ago - 1 comment

#138 - documentation and examples for pull request #137 require work

Issue - State: closed - Opened by AdamCSmithCWS about 5 years ago - 1 comment

#137 - adding a number of features to the generate_trend and generare_indices functions

Pull Request - State: closed - Opened by AdamCSmithCWS about 5 years ago

#136 - Add functions to conduct k-fold cross validations

Issue - State: open - Opened by AdamCSmithCWS about 5 years ago

#135 - Include only strata with species observations across the entire time-series when calculating regional or continental summaries

Issue - State: closed - Opened by AdamCSmithCWS about 5 years ago - 1 comment

#134 - Readme.md - describe what "CWS" means

Issue - State: closed - Opened by trashbirdecology about 5 years ago

#133 - Remove `fetch_sample_data` from .md as function DNE

Pull Request - State: closed - Opened by trashbirdecology about 5 years ago

#132 - corrected the definition of fixedyear for the slope model

Pull Request - State: closed - Opened by AdamCSmithCWS about 5 years ago

#131 - Fix issue with inconsistent column names

Pull Request - State: closed - Opened by mbjoseph over 5 years ago

#130 - Stop-level data fetching broke with latest BBS data release

Issue - State: closed - Opened by mbjoseph over 5 years ago

#129 - Uodate fetch_bbs_data for 2018 data set

Issue - State: closed - Opened by BrandonEdwards over 5 years ago - 1 comment
Labels: bug

#128 - get_final_values doesn't return anything with parallel

Issue - State: closed - Opened by BrandonEdwards over 5 years ago
Labels: bug

#127 - JAGS 4.3.0 does not work with bbsBayes

Issue - State: closed - Opened by BrandonEdwards over 5 years ago - 1 comment
Labels: bug

#126 - investigate/fix 9 July 2019 Travis CI build

Issue - State: closed - Opened by BrandonEdwards over 5 years ago
Labels: Travis CI

#125 - calculate national indices and trends

Issue - State: closed - Opened by BrandonEdwards over 5 years ago - 1 comment
Labels: enhancement

#124 - allow for parallel chains in get_final_values()

Issue - State: closed - Opened by BrandonEdwards over 5 years ago
Labels: enhancement

#123 - stratify() does not check if user sent their own bbs data object

Issue - State: closed - Opened by BrandonEdwards over 5 years ago
Labels: bug

#122 - remove testthat

Issue - State: closed - Opened by BrandonEdwards over 5 years ago

#121 - deprecation messages for old function arguments

Issue - State: closed - Opened by BrandonEdwards over 5 years ago

#120 - change back to using jags 4.3.0

Issue - State: closed - Opened by BrandonEdwards over 5 years ago

#119 - Make use of "rappdirs" to store BBS data on user's machine.

Issue - State: closed - Opened by BrandonEdwards over 5 years ago
Labels: enhancement

#118 - environment variable for downloaded BBS data

Issue - State: closed - Opened by BrandonEdwards over 5 years ago
Labels: enhancement

#117 - Fix build from 3 May 2019

Issue - State: closed - Opened by BrandonEdwards over 5 years ago
Labels: Travis CI

#116 - change index calculations to use median rather than mean

Issue - State: closed - Opened by BrandonEdwards over 5 years ago
Labels: enhancement, minor fix

#115 - Change "dont_track_n" to "track_n" in run_model()

Issue - State: closed - Opened by BrandonEdwards over 5 years ago
Labels: documentation, minor fix

#114 - run until convergence or max number of sampling runs

Issue - State: closed - Opened by BrandonEdwards over 5 years ago
Labels: enhancement

#113 - Change default number of iterations, burn-in, and thin rate

Issue - State: closed - Opened by BrandonEdwards over 5 years ago
Labels: minor fix

#112 - n_saved_steps is an unused argument

Issue - State: closed - Opened by BrandonEdwards over 5 years ago - 1 comment
Labels: minor fix

#111 - simple error checking

Issue - State: closed - Opened by BrandonEdwards over 5 years ago
Labels: bug

#110 - throw error if user specifies not a real stratification

Issue - State: closed - Opened by BrandonEdwards over 5 years ago
Labels: bug

#109 - clean up documentation

Issue - State: closed - Opened by BrandonEdwards over 5 years ago - 1 comment
Labels: documentation

#108 - Mislabeled stratum indices in generate_strata_indices()

Issue - State: closed - Opened by BrandonEdwards over 5 years ago
Labels: bug

#107 - refine language in prepare_jags_data() documentation

Issue - State: closed - Opened by BrandonEdwards over 5 years ago
Labels: documentation

#104 - route_sample data may be missing some data

Issue - State: closed - Opened by BrandonEdwards over 5 years ago
Labels: bug

#93 - functionality to assess model convergence

Issue - State: closed - Opened by BrandonEdwards almost 6 years ago - 1 comment
Labels: enhancement

#91 - calculated trends appear to be slightly off compared to USGS published trends

Issue - State: closed - Opened by BrandonEdwards almost 6 years ago - 4 comments
Labels: bug, ivory billed

#71 - Progress bar does not clear after update

Issue - State: closed - Opened by BrandonEdwards about 6 years ago - 3 comments
Labels: bug, ivory billed

#68 - document what columns of the dataframe is used in prepare_jags_data

Issue - State: closed - Opened by BrandonEdwards about 6 years ago
Labels: documentation

#67 - Figure out how to use AWK to make data download easier

Issue - State: closed - Opened by BrandonEdwards over 6 years ago - 2 comments
Labels: enhancement

#63 - Elegantly deal with subspecies and species complexes

Issue - State: closed - Opened by BrandonEdwards over 6 years ago - 1 comment
Labels: enhancement, internal

GitHub / bbsBayes/bbsBayes issues and pull requests