Generate best guess of cover for each taxa*context
Usage
add_cover(
df,
context = "cell",
env_prcomp,
lucover,
lucover_col = "cover_mid",
small_cov = 0.009,
remove_all_small = TRUE,
fix_1to100 = TRUE
)
Arguments
- df
Dataframe with context, taxa and cover columns.
- context
Character. Name of columns defining context.
- env_prcomp
List. Result from call to
envClean::env_pca()
- lucover
Dataframe. Lookup from
cover_code
to numeric cover values- small_cov
A small cover value assigned to any record for which there is no available site, pca or taxa cover value.
- remove_all_small
Logical. If
TRUE
(default) context(s) where all taxa are assignedsmall_cov
are removed.- fix_1to100
Logical. Any values found in
cover
field ofdf
that are between above 1 and less than or equal to 100 are divided by 100.- lucover_co
Character. Name of column in lucover containing cover values to use for any
cover_code