I don't think desc takes an na.rm argument... I'm actually surprised it doesn't throw an error when you give it one. If you just want to remove NAs, use na.omit (base) or tidyr::drop_na:
outcome.df %>%
na.omit() %>%
group_by(Hospital, State) %>%
arrange(desc(HeartAttackDeath)) %>%
head()
library(tidyr)
outcome.df %>%
drop_na() %>%
group_by(Hospital, State) %>%
arrange(desc(HeartAttackDeath)) %>%
head()
If you only want to remove NAs from the HeartAttackDeath column, filter with is.na, or use tidyr::drop_na:
outcome.df %>%
filter(!is.na(HeartAttackDeath)) %>%
group_by(Hospital, State) %>%
arrange(desc(HeartAttackDeath)) %>%
head()
outcome.df %>%
drop_na(HeartAttackDeath) %>%
group_by(Hospital, State) %>%
arrange(desc(HeartAttackDeath)) %>%
head()
As pointed out at the dupe, complete.cases can also be used, but it's a bit trickier to put in a chain because it takes a data frame as an argument but returns an index vector. So you could use it like this:
outcome.df %>%
filter(complete.cases(.)) %>%
group_by(Hospital, State) %>%
arrange(desc(HeartAttackDeath)) %>%
head()