pct_cover automatically removes groupings that start or end with "Na"

[annack84]

The pct_cover function filters out indicators for user grouping variables that start or end with "NA". For example, I included a nativity column in my species file (filled with either "Introduced" or "Native"), and pct_cover only gave me the indicators for the "Introduced" group.

Here's the existing code (lines 168 - 172): summary <- summary %>% subset(!grepl( x = indicator, pattern = "^[.]|[.]$|\.\.|\.NA|NA\.|\.NA\." ))

Here's a fix that worked for me: summary <- summary %>% subset(!grepl( x = indicator, pattern = "^[.]|[.]$|\.\.|\.NA$|^NA\.|\.NA\." ))

[smccord]

Thanks! Can you send me a copy of your species file?

On Wed, Aug 18, 2021 at 2:55 PM annack84 @.***> wrote:

The pct_cover function filters out indicators for user grouping variables that start or end with "NA". For example, I included a nativity column in my species file (filled with either "Introduced" or "Native"), and pct_cover only gave me the indicators for the "Introduced" group.

Here's the existing code (lines 168 - 172): summary <- summary %>% subset(!grepl( x = indicator, pattern = "^[.]|[.]$|..|.NA|NA.|.NA." ))

Here's a fix that worked for me: summary <- summary %>% subset(!grepl( x = indicator, pattern = "^[.]|[.]$|..|.NA$|^NA.|.NA." ))

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[annack84]

Sure, here it is. I discovered this issue when trying to calculate percent cover with these grouping variables: PhotosyntheticPathway, Native, Duration, GrowthHabitSub. The results I got only included the "Introduced" indicators - "Native" indicators were excluded.

SpeciesList_SWEDD_Vernal_20210811.csv

[smccord]

Thanks! Fixed!