marginal total in tables

Question

I have a data frame with a number of infections identified from clinical isolates at different dates.

So far I have organised the data into a shape that I want to start

Answer 1

To add margins, use addmargins()

addmargins(table(state.division, state.region))
                    state.region
state.division       Northeast South North Central West Sum
  New England                6     0             0    0   6
  Middle Atlantic            3     0             0    0   3
  South Atlantic             0     8             0    0   8
  East South Central         0     4             0    0   4
  West South Central         0     4             0    0   4
  East North Central         0     0             5    0   5
  West North Central         0     0             7    0   7
  Mountain                   0     0             0    8   8
  Pacific                    0     0             0    5   5
  Sum                        9    16            12   13  50

To calculate percentages, use prop.table()

prop.table(table(state.division, state.region))
                    state.region
state.division       Northeast South North Central West
  New England             0.12  0.00          0.00 0.00
  Middle Atlantic         0.06  0.00          0.00 0.00
  South Atlantic          0.00  0.16          0.00 0.00
  East South Central      0.00  0.08          0.00 0.00
  West South Central      0.00  0.08          0.00 0.00
  East North Central      0.00  0.00          0.10 0.00
  West North Central      0.00  0.00          0.14 0.00
  Mountain                0.00  0.00          0.00 0.16
  Pacific                 0.00  0.00          0.00 0.10

Answer 2

It also works with survey package's svytable().

addmargins(svytable(formula = ~x1+x2, design = df.w))