Hi, welcome to the forum.
If I understand the question you wish to independently analyse the data in one column of a data.frame with the NA's removed. I think this example does what you want
dat1 <- data.frame(xx = 1:10, yy = c(1,2,3,4,NA, 6,7,8,9,NA))
dat2 <- na.omit(dat1$yy)