Skip to content

bglarkin/sage_thinning_planner

Folders and files

NameName
Last commit message
Last commit date

Latest commit

 

History

34 Commits
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 

Repository files navigation

Sage Thinning Planner

Pixels in the sage mortality overlay represent the presence of nearly all sage plants on MPG Ranch. Users can view sage presence, the percentage of vole-killed sage within each 10 × 10 m pixel, herbaceous layer composition at survey transects, and locations of past sage thinning efforts. Together, these data help users consider potential vegetation responses associated with thinning, given the composition of nearby vegetation.

History and Purpose

During the winter of 2024–25, vole populations increased dramatically and consumed sage cambium across large areas of MPG Ranch. Many sage plants were girdled and killed. In 2025, we measured shrub and herbaceous vegetation to quantify sage mortality and track herbaceous community responses.

Sage Thinning Planner

Dean views a scene of heavy sage mortality due to "volepocalypse".

We expect sage regeneration to be slow in areas without additional disturbance, with a corresponding increase in herbaceous vegetation. Locally abundant and competitive herbaceous species are likely to have an advantage during recolonization.

A similar process may occur in areas where sage is mechanically thinned to promote herbaceous forage. Where sage mortality is anticipated—whether due to thinning or vole activity—it may be useful to consider the surrounding vegetation during planning. High abundance of exotic annual grasses or exotic perennial forbs may suggest selecting alternative sites for thinning, such as those with stronger native herbaceous communities.

Map Display

The map shows MPG Ranch with several user-controlled overlays.

  1. Sage Mortality heatmap overlay. This surface was created by Kyle Doherty using drone imagery and plant survey data. It shows areas with at least 0.25 m2 of sage within each 10 × 10 m pixel. Pixel colors represent the percentage of vole-killed sage, estimated from image analysis, ground-based data, and machine learning. Kyle’s latest report is available here.
  2. Herbaceous Composition Pie Charts. Pie charts show the composition of the herbaceous layer, grouped by plant functional type (see codes below). These data come from two sources: periodic vegetation surveys (aka "grid-veg") and a one-time survey conducted in 2025 for the vole outbreak. Click a pie to view percent cover, composition, and data source for each location. Composition represents the proportion of total herbaceous cover contributed by each group and always sums to 100%. For example, if total herbaceous cover is 16% and native perennial grasses account for 8%, their composition is 50%. Thus, composition identifies which functional group dominates the community, regardless of total cover. Based on expected post-sage succession, dominant groups are likely to expand following sage loss.
    • Plant Functional Group Codes
      • EAF — exotic annual forb
      • EAG — exotic annual grass
      • EPF — exotic perennial forb
      • EPG — exotic perennial grass
      • NAF — narive annual forb
      • NAG — native annual grass
      • NPF — native perennial forb
      • NPG — native perennial grass
  3. Existing Sage Thins. Provided by Chuck Casper. Polygons delineate areas that have been hand-thinned, machine-thinned, burned, or treated with combinations of these methods.
  4. MPG Ranch Boundary. From Chuck Casper (2018).

Usage

Users can toggle overlays using the checkboxes and adjust the opacity of the sage overlay and the size of pie charts using the sliders below.

Development

The source code is available on Github. Please submit issues there or contact Beau @ MPG Ranch with questions.

About

Shiny application. Map displays the extent of sage cover and volepocalypse intensity overlaid with herbaceous functional group cover and known thinning polyons. Users may plan thinning efforts around the cover of undesirable herbaceous species in the vicinity.

Topics

Resources

Stars

Watchers

Forks

Packages

 
 
 

Contributors

Languages