Package to produce a summary table which may be used as Table 1 in a manuscript. Functions
are supplied to give equivalence to the R package tableone by Kazuki Yoshida.
julia> using Pkg; Pkg.add("TableOne")
julia> using TableOneThe only exported function is tableone.
We use a publicly available Primary Biliary Cholangitis dataset to create an example Table 1.
julia> using TableOne, CSV, DataFrames, Downloads
julia> pbcdata = CSV.read(
Downloads.download("http://www-eio.upc.edu/~pau/cms/rdata/csv/survival/pbc.csv"),
DataFrame;
missingstring="NA");
julia> tableone(
pbcdata,
:trt,
[ "age", "sex", "hepato", "edema", "bili", "chol", "stage" ];
binvars = [ "sex", "hepato" ],
catvars = [ "edema", "stage" ],
npvars = [ "bili", "chol" ],
digits = 2,
pvalues=true,
binvardisplay = Dict("sex" => "f"),
varnames = Dict(
"age" => "Age, years",
"hepato" => "Hepatomegaly",
"bili" => "Bilirubin: mg/dL",
"chol" => "Cholesterol: mg/dL"
)
)
15×5 DataFrame
Row │ variablenames 1 2 nmissing p
│ String String String String String
─────┼────────────────────────────────────────────────────────────────────────────────────────────────
1 │ n 158 154 106
2 │ Age, years: mean (sd) 51.42 (11.01) 48.58 (9.96) 0 0.018
3 │ sex: f 137 (86.71) 139 (90.26) 0 0.422
4 │ Hepatomegaly: 1 73 (46.2) 87 (56.49) 0 0.088
5 │ edema 0 0.877
6 │ 0.0 132 (83.54) 131 (85.06)
7 │ 0.5 16 (10.13) 13 (8.44)
8 │ 1.0 10 (6.33) 10 (6.49)
9 │ Bilirubin: mg/dL: median [IQR] 1.4 [0.8–3.2] 1.3 [0.72–3.6] 0 0.842
10 │ Cholesterol: mg/dL: median [IQR] 315.5 [247.75–417.0] 303.5 [254.25–377.0] 28 0.544
11 │ stage 0 0.201
12 │ 1 12 (7.59) 4 (2.6)
13 │ 2 35 (22.15) 32 (20.78)
14 │ 3 56 (35.44) 64 (41.56)
15 │ 4 55 (34.81) 54 (35.06)More examples are given in the documentation at https://docs.juliahub.com/General/TableOne/stable/.
Please let me know if you use this package, if it works well for you and if there are any problems.
Version 0.2 contains all the functionality I currently plan to add. Please let me know if there is anything you think should be added, either as an Issue or a Pull request.