Lichen abundance on two tree species
Bibliographic record
Abstract
Lichen_Names.csv: this is a csv file (34 rows, 2 columns), with a header line. The first column is lichen species scientific names. Species names are as listed in the most recent Checklist of North American Lichen (Esslinger 2019). The second column is the species codes as used in the associated manuscript. bF_abundanceTreeLevel.csv: this is a csv file (21 rows, 26 columns, with a header line). The data describe lichen abundance on 21 balsam fir (Abies balsamea) trees in the Central Avalon Ecoregion, island of Newfoundland, Canada. The first column is the TreeID. The remaining columns list the abundance (number of individual thalli) of each species found on each tree. Associated species names for each code are found in the Lichen_Names.csv file yB_abundanceTreeLevel.csv: this is a csv file (21 rows, 31columns, with a header line). The data describe lichen abundance on 21 yellow birch (Betula alleghaniensis) trees in the Central Avalon Ecoregion, island of Newfoundland, Canada. The first column is the TreeID. The remaining columns list the abundance (number of individual thalli) of each species found on each tree. Associated species names for each code are found in the Lichen_Names.csv file. TreeSiteData_BF.csv: this is a csv file (21 rows, 16 columns, with a header file). The data are the tree-and site level data for the 21 balsam fir (Abies balsamea) trees. TreeSiteData_YB.csv: this is a csv file (21 rows, 16 columns, with a header file). The data are the tree-and site level data for the 21 balsam fir (Betula alleghaniensis) trees. For the two “TreeSiteData” files, the column details are as follows · TreeID: The treeID number (same as in the lichen abundance datasets) · Texture: a categorical variable that ranks the bark texture from 1-3 (1 is relatively smooth, 2 is moderately ridged, 3 is deeply and heavily ridged) · Canopy1: This is the canopy cover (percent cover) at the tree base measured using a spherical densiometer · Height: This is the height of the tree, in metres, measured using a Suunto Clinometer · pH: This is the bark pH, measured following the procedure outlined in the manuscript · Age: The is the age of the tree, as measured using an increment borer · Age_AG: The age of the tree as measured by a second technician who checked the tree cores · Slope: This is the slope (percent) of the plot taken at the centre of the plot, measured with a Suunto clinometer · Positon: These are categorical values to describe the slope positon on which the tree is found on; 1: upper slope, 2: mid slope, 3: lower slope, 4: toe, or 5: level. · Aspect: Compass aspect (0-360°) adjusted for declination at which the slope faces · Adj_aspect: Compass aspect adjusted to absolute from North (values 0-180°) · Cardinal: The cardinal direction of the slope face (taken from Aspect) but adjusted as categorical data; 1: north, 2: northeast, 3: east, 4: southeast, 5: south, 6: southwest, 7: west, 8 northwest. · Distance: Distance between the two trees at the site. · Canopy2: Average canopy density taken at the centre of the site (mid-way point between the two tree species sampled · Density: Stem density in the stand, measured using the point-quarter method, as outlined in the methods section of the manuscript.
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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 | 0.000 | 0.002 |
| Meta-epidemiology (narrow) | 0.001 | 0.000 |
| Meta-epidemiology (broad) | 0.001 | 0.000 |
| Bibliometrics | 0.003 | 0.005 |
| Science and technology studies | 0.001 | 0.000 |
| Scholarly communication | 0.001 | 0.001 |
| Open science | 0.001 | 0.001 |
| Research integrity | 0.000 | 0.001 |
| Insufficient payload (model declined to judge) | 0.185 | 0.055 |
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".