Description Usage Arguments Value
View source: R/get_colonizers.R
Identify species colonizing, going extinct, and persisting between years
1 |
d |
An input data.table with columns spp, year, stratum, haulid, depth, lon, lat (may have others, but they aren't used) |
A list of length 5:
col_dt | colonization events for each year-stratum-species. |
col_ext_dt | colonization (1), extinction (-1), or no change for each species-year |
n_cep | the number of colonizations, extinctions, or no-change events in the whole region for each year |
n_spp_col_weighted | appropriate aggregation of the column by this name in col_dt |
n_spp_col_weighted_tot | like n_spp_col_weighted , but summed up across years (and divided by yrs_sampled ) |
Note that for each element with "col" in its name, there is an extinction counterpart; i.e., ext_dt
, n_spp_ext_weighted
, n_spp_ext_weighted_tot
.
The columns in col_dt
(or ext_dt
for extinction equivalent) are:
col_logic | logical indicating year-stratum-spp colonization (name is still col_logic in ext_dt ) |
n_spp_col | number of species that colonized a stratum in a year |
n_strat_col | number of strata colonized by this specie sin this year |
n_spp_col_weighted | Like n_strat_col , but divided by n_strat_col (e.g. if a species colonizes 5 strata, it only contributes 0.2 to each stratum). |
yrs_sampled | The number of years a stratum was sampled. |
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