create_INLA_dat: Prepare network meta-analysis dataset for INLA.
In nmaINLA: Network Meta-Analysis using Integrated Nested Laplace Approximations
Description
Usage
Arguments
Details
Value
Author(s)
See Also
Examples
View source: R/create_INLA_dat.R
Description
create_INLA_dat converts datasets in the one-study-per-row format to one-arm-per-row format
, then adds indicator (dummy) variables for the basic contrasts,
heterogeneity random effects and design-specific inconsistency random effects and for
correlated multi-arm trials.
Usage
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create_INLA_dat(
dat = dat,
armVars = c(treatment = "t", responders = "r", sampleSize = "n"),
covariate = "cov",
design = "des",
nArmsVar = "na"
)
Arguments
dat
Data in one-study-per-row format.
armVars
Vector of per-arm variables
The name of each component will be the column name in the resulting dataset.
covariate
Optional. Vector of study-specific covariate
design
Optional. Vector of study-specific design. We refer design for
the set of treatments in each trial.
nArmsVar
Variable holding the number of arms for each study.
Details
The resulting data.frame can be used as data argument in nma_inla.
Value
A data frame with the generated coloumns.
Author(s)
Burak Kuersad Guenhan, burak.gunhan@med.uni-goettingen.de,
Rafael Sauter and Gert van Valkenhoef
See Also
Examples
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data('Smokdat')
## Create the dataset suitable for INLA
SmokdatINLA <- create_INLA_dat(dat = Smokdat, armVars = c('treatment' = 't', 'responders' = 'r'
,'sampleSize' = 'n'), nArmsVar = 'na')
## Check that the data are correct
print(SmokdatINLA)
Example output
study treatment responders sampleSize na baseline mu d12 d13 d14 g het inc
1 1 1 9 140 3 1 1 0 0 0 NA NA NA
2 1 3 23 140 3 1 1 0 1 0 1 1 1
3 1 4 10 138 3 1 1 0 0 1 2 1 1
4 2 2 11 78 3 2 2 0 0 0 NA NA NA
5 2 3 12 85 3 2 2 -1 1 0 1 2 2
6 2 4 29 170 3 2 2 -1 0 1 2 2 2
7 3 1 75 731 2 1 3 0 0 0 NA NA NA
8 3 3 363 714 2 1 3 0 1 0 1 3 3
9 4 1 2 106 2 1 4 0 0 0 NA NA NA
10 4 3 9 205 2 1 4 0 1 0 1 4 3
11 5 1 58 549 2 1 5 0 0 0 NA NA NA
12 5 3 237 1561 2 1 5 0 1 0 1 5 3
13 6 1 0 33 2 1 6 0 0 0 NA NA NA
14 6 3 9 48 2 1 6 0 1 0 1 6 3
15 7 1 3 100 2 1 7 0 0 0 NA NA NA
16 7 3 31 98 2 1 7 0 1 0 1 7 3
17 8 1 1 31 2 1 8 0 0 0 NA NA NA
18 8 3 26 95 2 1 8 0 1 0 1 8 3
19 9 1 6 39 2 1 9 0 0 0 NA NA NA
20 9 3 17 77 2 1 9 0 1 0 1 9 3
21 10 1 79 702 2 1 10 0 0 0 NA NA NA
22 10 2 77 694 2 1 10 1 0 0 1 10 4
23 11 1 18 671 2 1 11 0 0 0 NA NA NA
24 11 2 21 535 2 1 11 1 0 0 1 11 4
25 12 1 64 642 2 1 12 0 0 0 NA NA NA
26 12 3 107 761 2 1 12 0 1 0 1 12 3
27 13 1 5 62 2 1 13 0 0 0 NA NA NA
28 13 3 8 90 2 1 13 0 1 0 1 13 3
29 14 1 20 234 2 1 14 0 0 0 NA NA NA
30 14 3 34 237 2 1 14 0 1 0 1 14 3
31 15 1 0 20 2 1 15 0 0 0 NA NA NA
32 15 4 9 20 2 1 15 0 0 1 1 15 5
33 16 1 8 116 2 1 16 0 0 0 NA NA NA
34 16 2 19 146 2 1 16 1 0 0 1 16 4
35 17 1 95 1107 2 1 17 0 0 0 NA NA NA
36 17 3 143 1031 2 1 17 0 1 0 1 17 3
37 18 1 15 187 2 1 18 0 0 0 NA NA NA
38 18 3 35 504 2 1 18 0 1 0 1 18 3
39 19 1 78 584 2 1 19 0 0 0 NA NA NA
40 19 3 73 675 2 1 19 0 1 0 1 19 3
41 20 1 69 1177 2 1 20 0 0 0 NA NA NA
42 20 3 54 888 2 1 20 0 1 0 1 20 3
43 21 2 20 49 2 2 21 0 0 0 NA NA NA
44 21 3 16 43 2 2 21 -1 1 0 1 21 6
45 22 2 7 66 2 2 22 0 0 0 NA NA NA
46 22 4 32 127 2 2 22 -1 0 1 1 22 7
47 23 3 12 76 2 3 23 0 0 0 NA NA NA
48 23 4 20 74 2 3 23 0 -1 1 1 23 8
49 24 3 9 55 2 3 24 0 0 0 NA NA NA
50 24 4 3 26 2 3 24 0 -1 1 1 24 8
nmaINLA documentation built on July 22, 2021, 1:05 a.m.
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Description Usage Arguments Details Value Author(s) See Also Examples
View source: R/create_INLA_dat.R
Description
create_INLA_dat converts datasets in the one-study-per-row format to one-arm-per-row format
, then adds indicator (dummy) variables for the basic contrasts,
heterogeneity random effects and design-specific inconsistency random effects and for
correlated multi-arm trials.
Usage
1 2 3 4 5 6 7 | create_INLA_dat(
dat = dat,
armVars = c(treatment = "t", responders = "r", sampleSize = "n"),
covariate = "cov",
design = "des",
nArmsVar = "na"
)
|
Arguments
dat |
Data in one-study-per-row format. |
armVars |
Vector of per-arm variables The name of each component will be the column name in the resulting dataset. |
covariate |
Optional. Vector of study-specific covariate |
design |
Optional. Vector of study-specific design. We refer design for the set of treatments in each trial. |
nArmsVar |
Variable holding the number of arms for each study. |
Details
The resulting data.frame can be used as data argument in nma_inla.
Value
A data frame with the generated coloumns.
Author(s)
Burak Kuersad Guenhan, burak.gunhan@med.uni-goettingen.de, Rafael Sauter and Gert van Valkenhoef
See Also
Examples
1 2 3 4 5 6 | data('Smokdat')
## Create the dataset suitable for INLA
SmokdatINLA <- create_INLA_dat(dat = Smokdat, armVars = c('treatment' = 't', 'responders' = 'r'
,'sampleSize' = 'n'), nArmsVar = 'na')
## Check that the data are correct
print(SmokdatINLA)
|
Example output
study treatment responders sampleSize na baseline mu d12 d13 d14 g het inc
1 1 1 9 140 3 1 1 0 0 0 NA NA NA
2 1 3 23 140 3 1 1 0 1 0 1 1 1
3 1 4 10 138 3 1 1 0 0 1 2 1 1
4 2 2 11 78 3 2 2 0 0 0 NA NA NA
5 2 3 12 85 3 2 2 -1 1 0 1 2 2
6 2 4 29 170 3 2 2 -1 0 1 2 2 2
7 3 1 75 731 2 1 3 0 0 0 NA NA NA
8 3 3 363 714 2 1 3 0 1 0 1 3 3
9 4 1 2 106 2 1 4 0 0 0 NA NA NA
10 4 3 9 205 2 1 4 0 1 0 1 4 3
11 5 1 58 549 2 1 5 0 0 0 NA NA NA
12 5 3 237 1561 2 1 5 0 1 0 1 5 3
13 6 1 0 33 2 1 6 0 0 0 NA NA NA
14 6 3 9 48 2 1 6 0 1 0 1 6 3
15 7 1 3 100 2 1 7 0 0 0 NA NA NA
16 7 3 31 98 2 1 7 0 1 0 1 7 3
17 8 1 1 31 2 1 8 0 0 0 NA NA NA
18 8 3 26 95 2 1 8 0 1 0 1 8 3
19 9 1 6 39 2 1 9 0 0 0 NA NA NA
20 9 3 17 77 2 1 9 0 1 0 1 9 3
21 10 1 79 702 2 1 10 0 0 0 NA NA NA
22 10 2 77 694 2 1 10 1 0 0 1 10 4
23 11 1 18 671 2 1 11 0 0 0 NA NA NA
24 11 2 21 535 2 1 11 1 0 0 1 11 4
25 12 1 64 642 2 1 12 0 0 0 NA NA NA
26 12 3 107 761 2 1 12 0 1 0 1 12 3
27 13 1 5 62 2 1 13 0 0 0 NA NA NA
28 13 3 8 90 2 1 13 0 1 0 1 13 3
29 14 1 20 234 2 1 14 0 0 0 NA NA NA
30 14 3 34 237 2 1 14 0 1 0 1 14 3
31 15 1 0 20 2 1 15 0 0 0 NA NA NA
32 15 4 9 20 2 1 15 0 0 1 1 15 5
33 16 1 8 116 2 1 16 0 0 0 NA NA NA
34 16 2 19 146 2 1 16 1 0 0 1 16 4
35 17 1 95 1107 2 1 17 0 0 0 NA NA NA
36 17 3 143 1031 2 1 17 0 1 0 1 17 3
37 18 1 15 187 2 1 18 0 0 0 NA NA NA
38 18 3 35 504 2 1 18 0 1 0 1 18 3
39 19 1 78 584 2 1 19 0 0 0 NA NA NA
40 19 3 73 675 2 1 19 0 1 0 1 19 3
41 20 1 69 1177 2 1 20 0 0 0 NA NA NA
42 20 3 54 888 2 1 20 0 1 0 1 20 3
43 21 2 20 49 2 2 21 0 0 0 NA NA NA
44 21 3 16 43 2 2 21 -1 1 0 1 21 6
45 22 2 7 66 2 2 22 0 0 0 NA NA NA
46 22 4 32 127 2 2 22 -1 0 1 1 22 7
47 23 3 12 76 2 3 23 0 0 0 NA NA NA
48 23 4 20 74 2 3 23 0 -1 1 1 23 8
49 24 3 9 55 2 3 24 0 0 0 NA NA NA
50 24 4 3 26 2 3 24 0 -1 1 1 24 8
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