The method as.igraph()
converts nma_data
objects into the form used by
the igraph package. The method as_tbl_graph()
converts nma_data
objects into the form used by the
ggraph and
tidygraph packages.
Usage
# S3 method for class 'nma_data'
as.igraph(x, ..., collapse = TRUE)
# S3 method for class 'nma_data'
as_tbl_graph(x, ...)
Arguments
- x
An nma_data object to convert
- ...
Additional arguments
- collapse
Logical, collapse edges over studies? Default
TRUE
, only one edge is produced for each comparison (by IPD or AgD study type) with a.nstudy
attribute giving the number of studies making that comparison. IfFALSE
, repeated edges are added for each study making the comparison.
Examples
# Set up network of smoking cessation data
head(smoking)
#> studyn trtn trtc r n
#> 1 1 1 No intervention 9 140
#> 2 1 3 Individual counselling 23 140
#> 3 1 4 Group counselling 10 138
#> 4 2 2 Self-help 11 78
#> 5 2 3 Individual counselling 12 85
#> 6 2 4 Group counselling 29 170
smk_net <- set_agd_arm(smoking,
study = studyn,
trt = trtc,
r = r,
n = n,
trt_ref = "No intervention")
# Print details
smk_net
#> A network with 24 AgD studies (arm-based).
#>
#> ------------------------------------------------------- AgD studies (arm-based) ----
#> Study Treatment arms
#> 1 3: No intervention | Group counselling | Individual counselling
#> 2 3: Group counselling | Individual counselling | Self-help
#> 3 2: No intervention | Individual counselling
#> 4 2: No intervention | Individual counselling
#> 5 2: No intervention | Individual counselling
#> 6 2: No intervention | Individual counselling
#> 7 2: No intervention | Individual counselling
#> 8 2: No intervention | Individual counselling
#> 9 2: No intervention | Individual counselling
#> 10 2: No intervention | Self-help
#> ... plus 14 more studies
#>
#> Outcome type: count
#> ------------------------------------------------------------------------------------
#> Total number of treatments: 4
#> Total number of studies: 24
#> Reference treatment is: No intervention
#> Network is connected
# Convert to igraph object
igraph::as.igraph(smk_net) # Edges combined by default
#> IGRAPH ebde84e UN-- 4 6 --
#> + attr: name (v/c), .sample_size (v/n), .nstudy (e/n), .type (e/c)
#> + edges from ebde84e (vertex names):
#> [1] No intervention --Group counselling
#> [2] No intervention --Individual counselling
#> [3] Group counselling --Individual counselling
#> [4] No intervention --Self-help
#> [5] Group counselling --Self-help
#> [6] Individual counselling--Self-help
igraph::as.igraph(smk_net, collapse = FALSE) # Without combining edges
#> IGRAPH e8251a5 UN-- 4 28 --
#> + attr: name (v/c), .sample_size (v/n), .study (e/c), .type (e/c)
#> + edges from e8251a5 (vertex names):
#> [1] No intervention --Group counselling
#> [2] No intervention --Individual counselling
#> [3] Group counselling --Individual counselling
#> [4] Group counselling --Individual counselling
#> [5] Group counselling --Self-help
#> [6] Individual counselling--Self-help
#> [7] No intervention --Individual counselling
#> [8] No intervention --Individual counselling
#> + ... omitted several edges
# Convert to tbl_graph object
tidygraph::as_tbl_graph(smk_net) # Edges combined by default
#> # A tbl_graph: 4 nodes and 6 edges
#> #
#> # An undirected simple graph with 1 component
#> #
#> # Node Data: 4 × 2 (active)
#> name .sample_size
#> <chr> <dbl>
#> 1 No intervention 7231
#> 2 Group counselling 555
#> 3 Individual counselling 7383
#> 4 Self-help 1571
#> #
#> # Edge Data: 6 × 4
#> from to .nstudy .type
#> <int> <int> <int> <chr>
#> 1 1 2 2 AgD
#> 2 1 3 15 AgD
#> 3 2 3 4 AgD
#> # ℹ 3 more rows
tidygraph::as_tbl_graph(smk_net, collapse = FALSE) # Without combining edges
#> # A tbl_graph: 4 nodes and 28 edges
#> #
#> # An undirected multigraph with 1 component
#> #
#> # Node Data: 4 × 2 (active)
#> name .sample_size
#> <chr> <dbl>
#> 1 No intervention 7231
#> 2 Group counselling 555
#> 3 Individual counselling 7383
#> 4 Self-help 1571
#> #
#> # Edge Data: 28 × 4
#> from to .study .type
#> <int> <int> <chr> <chr>
#> 1 1 2 1 AgD
#> 2 1 3 1 AgD
#> 3 2 3 1 AgD
#> # ℹ 25 more rows