Supplement to Projected future climatic forcing on the global distribution of vegetation types
Bibliographic record
Abstract
This repository contains the supplementary files for: Allen BJ, Hill DJ, Burke AM, Clark M, Marchant R, Stringer LC, Williams DR, Lyon C. 2024. Projected future climatic forcing on the global distribution of vegetation types. Philosophical Transactions of the Royal Society B. Description of files This repository contains the BIOME4 output files, the R code used to analyse them, and a selection of data tables summarising the results. netCDFs.zip - The raw BIOME4 outputs cleaned.zip - The cleaned biome datasets, as .csv files, describing the biome attributed to each cell in each time slice, for biomes and megabiomes, and with different human footprints (from the HYDE dataset) removed ranges.zip - Summary tables describing the latitudinal ranges, in each hemisphere, of each biome for each time slice centroids.zip - Summary tables describing the shift of each biome's centroid, in each hemisphere, between time slices counts.zip - Summary tables describing the number of grid cells not adjacent to their attributed biome in the previous time slice biome_conversion.txt - The table for converting between biome and megabiome attribution R_code.zip - All R code used to conduct analyses Description of R code The R code is subdivided into the following files: Read_nc.R - Code to read in netCDF files (containing BIOME4 outputs), clean, add area of cells, and convert to .csv Read_footprint.R - Code to cut the HYDE anthrome footprints out of the BIOME4 outputs Matrix_comparison.R - Code calculating the proportion of area changing biomes over time (creates Figure 2a & 3a) Biome_overlap.R - Code calculating the overlap of area attributed to each biome over time (creates Figure 2b & 3b) Unoccupiable_cells.R - Code calculating the proportion of cells attributed to a biome which are not adjacent to that same biome in the previous time slice (creates Figure S5) Biome_share.R - Code showing the change in total area for each biome over time (creates Figure S6 & S7) Centroid_shift.R - Code calculating the latitudinal ranges and centroids for each biome over time (creates Figure S8) Patchiness.R - Code calculating the number of patches of each biome over time (creates Figure S9)
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How this classification was reachedexpand
Full frame machine prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.
Distilled classifier scores by category (both heads)
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.001 | 0.010 |
| Meta-epidemiology (narrow) | 0.001 | 0.001 |
| Meta-epidemiology (broad) | 0.002 | 0.002 |
| Bibliometrics | 0.003 | 0.006 |
| Science and technology studies | 0.001 | 0.000 |
| Scholarly communication | 0.003 | 0.002 |
| Open science | 0.002 | 0.002 |
| Research integrity | 0.001 | 0.002 |
| Insufficient payload (model declined to judge) | 0.425 | 0.266 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".