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Getting started with hydromeso
hydromeso classifies depth and velocity into nominal
hydraulic mesohabitats. Install a local source package with
install.packages(path, repos = NULL, type = "source").
Exact default table
meso_scheme_rules(meso_scheme_default())
## class_id label depth_min depth_max velocity_min velocity_max
## 1 1 Shallow Pool 0.00 0.61 0.00 0.30
## 2 2 Medium Pool 0.61 1.37 0.00 0.30
## 3 3 Deep Pool 1.37 Inf 0.00 0.30
## 4 4 Slow Riffle 0.00 0.61 0.30 0.61
## 5 5 Fast Riffle 0.00 0.61 0.61 Inf
## 6 6 Raceway 0.61 1.37 0.30 0.61
## 7 7 Faster than Raceway 0.61 1.37 0.61 Inf
## 8 8 Faster than Deep Pool 1.37 Inf 0.30 Inf
All lower bounds are inclusive and all upper bounds are exclusive.
Exact depths 0.61 and 1.37 enter the medium and deep ranges; exact
velocities 0.30 and 0.61 enter the moderate and high ranges.
Values and tables
classify_mesohabitat_values(c(0, 0.61, 1.37), c(0, 0.30, 0.61))
## depth velocity mesohabitat_class mesohabitat
## 1 0.00 0.00 1 Shallow Pool
## 2 0.61 0.30 6 Raceway
## 3 1.37 0.61 8 Faster than Deep Pool
tab <- classify_mesohabitat_table(hydromeso_example, "depth", "velocity")
summarize_mesohabitat(tab)
## class_id label record_count percentage missing_count
## 1 1 Shallow Pool 3 17.647059 1
## 2 2 Medium Pool 3 17.647059 1
## 3 3 Deep Pool 2 11.764706 1
## 4 4 Slow Riffle 2 11.764706 1
## 5 5 Fast Riffle 2 11.764706 1
## 6 6 Raceway 2 11.764706 1
## 7 7 Faster than Raceway 2 11.764706 1
## 8 8 Faster than Deep Pool 1 5.882353 1
Rasters and export
h <- mesohabitat_example_rasters()
r <- classify_mesohabitat_raster(h$depth, h$velocity)
summarize_mesohabitat(r)
## scenario class_id label cell_count area_m2 hectares
## 1 mesohabitat 1 Shallow Pool 470 14148.535 1.4148535
## 2 mesohabitat 2 Medium Pool 205 6171.170 0.6171170
## 3 mesohabitat 3 Deep Pool 130 3913.425 0.3913425
## 4 mesohabitat 4 Slow Riffle 823 24774.986 2.4774986
## 5 mesohabitat 5 Fast Riffle 115 3461.876 0.3461876
## 6 mesohabitat 6 Raceway 1036 31186.982 3.1186982
## 7 mesohabitat 7 Faster than Raceway 3951 118937.996 11.8937996
## 8 mesohabitat 8 Faster than Deep Pool 14604 439628.086 43.9628086
## square_kilometres acres percentage
## 1 0.014148535 3.4961791 2.2030562
## 2 0.006171170 1.5249293 0.9609076
## 3 0.003913425 0.9670284 0.6093560
## 4 0.024774986 6.1220325 3.8576918
## 5 0.003461876 0.8554481 0.5390457
## 6 0.031186982 7.7064710 4.8560981
## 7 0.118937996 29.3902190 18.5197332
## 8 0.439628086 108.6344659 68.4541114
out <- file.path(tempdir(), "mesohabitat.tif")
write_mesohabitat(r, out, sidecar = TRUE, overwrite = TRUE)
The classes describe hydraulic conditions only. They are not
biological habitat-suitability scores, and the integer IDs are
nominal.
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
Health stats visible at Monitor.