analysis/reports/dis.md

In diazrenata/scadsplants: Constraints on SADs of Portal Plants

Diversity index report

Distribution of skewnesses

## Warning: Removed 3 rows containing non-finite values (stat_ydensity).

## Warning in max(data$density): no non-missing arguments to max; returning -
## Inf

## Warning: Removed 2 rows containing missing values (geom_point).

2009 is problematic because the communities are very small (S = 1 and 3, N = 2 and 5 respectively). Similarly, winter of 2000 had 12 individuals of 2 species. Notably, winter 1996 had 34 individuals of 3 species, and this appears to be enough to get some interesting variation going.

Shannon violins

## Warning in max(data$density): no non-missing arguments to max; returning -
## Inf

## Warning in max(data$density): no non-missing arguments to max; returning -
## Inf

Simpson violins

## Warning in max(data$density): no non-missing arguments to max; returning -
## Inf

## Warning in max(data$density): no non-missing arguments to max; returning -
## Inf

Frequency of diversity index percentiles

## Warning: Removed 2 rows containing non-finite values (stat_ydensity).

## Warning: Removed 2 rows containing missing values (geom_point).

Simpson's vs. skewness percentile values

## Warning: Removed 3 rows containing missing values (geom_point).

Zoomed to the very weirdest

## Scale for 'x' is already present. Adding another scale for 'x', which
## will replace the existing scale.

## Scale for 'y' is already present. Adding another scale for 'y', which
## will replace the existing scale.

## Warning: Removed 12 rows containing missing values (geom_point).

## [1] "How often is the Simpson percentile 0?"

## [1] 54

## [1] "How often is the skew percentile 100?"

## [1] 14

There's some relationship, but Simpson's drives to zero much earlier than the skewness percentile gets to 100. This squares with violin plots from earlier. Simpson's is more sensitive/less nuanced than skewness.

Would our conclusions change using Simpson's vs. skewness?

Orange is outliers. The Simpson non-outliers are a subset of the skew non-outliers. Distinguishing between a 5% threshold and a 2.5% threshold for outliers (vaguely one-sided v two-sided - but these are always one-sided) only changes one point.

diazrenata/scadsplants documentation built on Nov. 14, 2019, 2:42 p.m.