big-biodiversity-collaborative/swallowtailclimatechange issues and pull requests

#115 - Update climate-models.csv to include graphing values

Issue - State: open - Opened by jcoliver 14 days ago
Labels: enhancement

#115 - Update climate-models.csv to include graphing values

Issue - State: open - Opened by jcoliver 14 days ago
Labels: enhancement

#114 - Create get_colors() function

Issue - State: open - Opened by jcoliver 14 days ago
Labels: enhancement

#114 - Create get_colors() function

Issue - State: open - Opened by jcoliver 14 days ago
Labels: enhancement

#113 - Shift manuscript/supplemental asset creation to wrapper

Issue - State: open - Opened by jcoliver 20 days ago
Labels: question

#112 - Create binary hotspot maps

Issue - State: closed - Opened by jcoliver about 1 month ago - 3 comments
Labels: enhancement

#111 - Create Supplemental Area Overlap table

Issue - State: closed - Opened by jcoliver about 1 month ago - 1 comment
Labels: enhancement

#110 - Look at dynamics of species with suitable areas in contemporary hotspots

Issue - State: open - Opened by jcoliver about 2 months ago
Labels: enhancement, on hold

#109 - Make plot of lat min shifts and split by east west

Issue - State: closed - Opened by jcoliver 2 months ago - 5 comments
Labels: enhancement

#108 - Add % of >= 1 suitable host area suitable for bug

Issue - State: closed - Opened by jcoliver 2 months ago - 3 comments
Labels: enhancement

#107 - Create richness six-panel maps for supplement

Issue - State: closed - Opened by ezylstra 3 months ago - 1 comment

#106 - Add agency type information to protected areas hotspot plots

Issue - State: closed - Opened by jcoliver 3 months ago - 1 comment
Labels: enhancement

#105 - Update predicted distribution (and delta) colors

Issue - State: closed - Opened by jcoliver 3 months ago - 3 comments
Labels: enhancement

#104 - Create protected areas combined figures

Issue - State: closed - Opened by jcoliver 3 months ago - 1 comment
Labels: enhancement

#103 - Create single-species six-panel maps for manuscript

Issue - State: closed - Opened by jcoliver 3 months ago - 1 comment
Labels: enhancement

#102 - Update richness figure colors

Issue - State: closed - Opened by jcoliver 3 months ago - 4 comments
Labels: enhancement

#101 - Address P. aristodemus / Heraclides ponceana synonym

Issue - State: closed - Opened by jcoliver 8 months ago - 2 comments
Labels: bug

#100 - Deal with P. machaon oregonius

Issue - State: closed - Opened by jcoliver 9 months ago - 4 comments
Labels: bug

#99 - Update README with shift away from template scripts to functional approach

Issue - State: open - Opened by jcoliver 9 months ago
Labels: documentation

#98 - Identify best approach for incorporating protected lands data

Issue - State: open - Opened by jcoliver 9 months ago - 5 comments
Labels: enhancement, question

#97 - Write HPC assessment script

Issue - State: open - Opened by jcoliver 9 months ago - 1 comment
Labels: enhancement, workflow update

#96 - Update forecast data to explicitly use 8-model ensemble

Issue - State: closed - Opened by jcoliver 10 months ago - 3 comments
Labels: workflow update

#95 - Update climate data pull to include 2019-2021 data

Issue - State: closed - Opened by jcoliver 10 months ago - 2 comments
Labels: workflow update

#94 - Replace dismo::biovars with predicts::biovars

Issue - State: closed - Opened by jcoliver 11 months ago - 1 comment
Labels: enhancement

#93 - Update methods with latest workflow information

Issue - State: closed - Opened by jcoliver 11 months ago - 1 comment
Labels: documentation

#92 - Extract variable importance information from individual SDM

Issue - State: closed - Opened by jcoliver 11 months ago - 2 comments
Labels: workflow update

#91 - Add most extreme SSP (585) to workflow

Issue - State: closed - Opened by jcoliver 11 months ago - 2 comments
Labels: workflow update

#90 - Create richness (and corresponding delta) maps for bugs alone

Issue - State: closed - Opened by jcoliver 11 months ago - 1 comment
Labels: enhancement

#89 - Add option to use equal area projection for overlap/delta maps?

Issue - State: closed - Opened by ezylstra 11 months ago - 5 comments
Labels: enhancement

#88 - Add state boundaries to overlap and delta maps

Issue - State: closed - Opened by jcoliver 11 months ago - 2 comments
Labels: enhancement

#87 - Update 2070 predictions to use same buffer size as 2040

Issue - State: closed - Opened by jcoliver 12 months ago - 2 comments
Labels: workflow update

#86 - Write richness map script

Issue - State: closed - Opened by jcoliver 12 months ago - 3 comments
Labels: workflow update

#85 - Move create-delta-raster functionality to compare-ranges

Issue - State: closed - Opened by jcoliver 12 months ago - 2 comments
Labels: workflow update

#84 - Check for duplicated efforts in compare-ranges and create-delta-rasters

Issue - State: closed - Opened by jcoliver almost 1 year ago - 1 comment
Labels: question

#83 - Catch errors for missing model files in template 3

Issue - State: open - Opened by jcoliver almost 1 year ago - 1 comment
Labels: enhancement

#82 - Remove SDM-specificity from overlap_raster function

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

#81 - Clean data files on HPC before runs

Issue - State: closed - Opened by jcoliver about 1 year ago - 1 comment
Labels: enhancement

#80 - Move file checks from wrappers to template scripts

Issue - State: closed - Opened by jcoliver about 1 year ago - 4 comments
Labels: enhancement, workflow update

#79 - Clean functions directory

Issue - State: open - Opened by jcoliver about 1 year ago - 1 comment
Labels: on hold, workflow update

#78 - Assess whether ecospat and flexsdm packages still needed

Issue - State: closed - Opened by ezylstra about 1 year ago - 2 comments
Labels: question

#77 - Update wrappers and slurm scripts for HPC runs

Issue - State: closed - Opened by jcoliver about 1 year ago - 1 comment
Labels: workflow update

#76 - Update script to summarize overlap rasters

Issue - State: closed - Opened by ezylstra about 1 year ago - 1 comment
Labels: workflow update

#75 - Update script used to create overlap rasters

Issue - State: closed - Opened by ezylstra about 1 year ago - 1 comment
Labels: workflow update

#74 - Update README.md

Issue - State: closed - Opened by jcoliver about 1 year ago - 1 comment
Labels: documentation

#73 - Investigate shapefile creation process to ensure all files are created.

Issue - State: closed - Opened by jcoliver about 1 year ago - 1 comment
Labels: bug, question

#72 - Update predict_sdm

Issue - State: closed - Opened by ezylstra about 1 year ago
Labels: on hold

#71 - New predictions approach

Issue - State: closed - Opened by ezylstra about 1 year ago - 2 comments
Labels: workflow update

#70 - Rename or remove output/ranges

Issue - State: closed - Opened by ezylstra about 1 year ago - 1 comment
Labels: enhancement

#69 - Create script to run full SDMs

Issue - State: closed - Opened by ezylstra about 1 year ago - 1 comment
Labels: workflow update

#68 - New CV approach

Issue - State: closed - Opened by ezylstra about 1 year ago - 10 comments
Labels: workflow update

#67 - Create spatial folds using ENMeval

Issue - State: closed - Opened by ezylstra about 1 year ago - 3 comments
Labels: workflow update

#66 - Fix filtering step

Issue - State: closed - Opened by ezylstra about 1 year ago - 3 comments
Labels: bug

#65 - Decide on evaluation criteria/on to determine which models are good enough

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

#64 - Improve raster maps

Issue - State: closed - Opened by jcoliver over 1 year ago - 3 comments
Labels: enhancement

#63 - Update stack_rasters() to use terra instead of raster functions

Issue - State: closed - Opened by jcoliver over 1 year ago - 2 comments
Labels: bug

#62 - Revise "run-all-" wrapper scripts to ensure consistency

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

#61 - Different extents for distribution rasters

Issue - State: closed - Opened by ezylstra over 1 year ago - 5 comments

#60 - Filter out DNA barcode samples from GBIF

Issue - State: closed - Opened by jcoliver almost 2 years ago - 2 comments

#59 - Add try/(catch) to downloading function

Issue - State: closed - Opened by jcoliver almost 2 years ago - 3 comments
Labels: enhancement

#58 - Investigate density envelope for S. hookeriana

Issue - State: closed - Opened by jcoliver almost 2 years ago - 10 comments
Labels: bug

#58 - Investigate density envelope for S. hookeriana

Issue - State: closed - Opened by jcoliver almost 2 years ago - 10 comments
Labels: bug

#57 - Reconsider minimum number of observations

Issue - State: closed - Opened by jcoliver almost 2 years ago - 1 comment

#56 - Update run-all-* scripts with better core management

Issue - State: closed - Opened by jcoliver almost 2 years ago

#56 - Update run-all-* scripts with better core management

Issue - State: closed - Opened by jcoliver almost 2 years ago

#55 - Add setup script that does necessary extractions

Issue - State: closed - Opened by jcoliver almost 2 years ago - 1 comment
Labels: enhancement

#54 - Save distribution rasters with terra so they are SpatRasters

Issue - State: closed - Opened by jcoliver almost 2 years ago - 2 comments

#53 - Add flexibility to run SDMs for a subset of insects and their hostplants

Issue - State: closed - Opened by ezylstra almost 2 years ago

#52 - Remove coarse lat/lon filtering from GBIF download script

Issue - State: closed - Opened by jcoliver almost 2 years ago - 1 comment

#51 - Identify and implement output file storage options

Issue - State: closed - Opened by jcoliver about 2 years ago - 5 comments

#50 - Develop consensus approach

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

#49 - Mask out Great Lakes

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

#48 - Explore how problematic it may be to drop species with <40 filtered records

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

#47 - Add seed to script that generates background points

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

#46 - Decide whether to keep glms in the mix

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

#45 - Decide whether to include all climate variables in SDMs

Issue - State: closed - Opened by ezylstra about 2 years ago - 5 comments

#44 - Compare output from different SDMs

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

#43 - Identify minimum number of records for SDMs

Issue - State: closed - Opened by ezylstra about 2 years ago - 5 comments

#42 - Calculate percent of contemporary range occupied

Issue - State: closed - Opened by jcoliver about 2 years ago - 3 comments
Labels: on hold

#41 - Reduce size of BRT model objects

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

#40 - Check final resolution of forecast data

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

#39 - Add resolution information to ReadMe.md

Issue - State: closed - Opened by klprudic about 2 years ago - 1 comment
Labels: documentation

#38 - Rename scripts and/or output files to align with one another

Pull Request - State: closed - Opened by jcoliver about 2 years ago

#37 - Determine how to delineate geographic extent of SDMs

Issue - State: closed - Opened by ezylstra over 2 years ago - 2 comments
Labels: help wanted

#36 - Add thinning approach to observational data

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

#35 - Add filtering of observational data to 95-99% density envelope

Issue - State: closed - Opened by jcoliver over 2 years ago - 6 comments

#34 - Set geographic extent for predictions a priori

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

#33 - Create simple way of making distribution map

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

#32 - Check output values of predict_sdm on glm

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

#31 - Identify GBIF records for which climate data are unavailable

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

#30 - Update README to include development and ensemble folders

Issue - State: closed - Opened by ezylstra over 2 years ago - 2 comments
Labels: documentation

#29 - Update naming convention, connecting scripts to their output

Issue - State: closed - Opened by jcoliver over 2 years ago - 6 comments

#28 - Update bash scripts so they identify species-specific datafiles based on accepted name

Issue - State: closed - Opened by ezylstra over 2 years ago - 3 comments

#27 - Do an automated check for names we are using and accepted names

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

#26 - Include accepted name in downloaded data files

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

#25 - Add schematic of work flow to README

Issue - State: closed - Opened by nmelkonoff over 2 years ago - 3 comments
Labels: documentation, help wanted

#24 - Add structure to scripts description in README

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

#23 - Estimate data reduction with temporal restriction

Issue - State: closed - Opened by jcoliver over 2 years ago - 6 comments
Labels: good first issue

#22 - Archive (zip) gbif data files and add to version control

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

#21 - Filter data to date ranges 2000-2018

Issue - State: closed - Opened by jcoliver over 2 years ago - 1 comment
Labels: on hold

#20 - Replace mclapply with parLapply

Issue - State: closed - Opened by jcoliver over 2 years ago - 4 comments

GitHub / big-biodiversity-collaborative/swallowtailclimatechange issues and pull requests