extractLayout: Get Coordinate Layout From Graph Plot
In mlizhangx/Network-Analysis-for-Repertoire-Sequencing-: Network Analysis of Immune Repertoire
View source: R/visualization.R
extractLayout R Documentation
Get Coordinate Layout From Graph Plot
Description
Given a ggraph plot, extract the coordinate layout of
the graph nodes as a two-column matrix.
Usage
extractLayout(plot)
Arguments
plot
An object of class ggraph.
Details
Equivalent to as.matrix(plot$data[c("x", "y")]).
Value
A matrix with two columns and one row per network node. Each row contains the
Cartesian coordinates of the corresponding node.
Author(s)
Brian Neal (Brian.Neal@ucsf.edu)
References
Hai Yang, Jason Cham, Brian Neal, Zenghua Fan, Tao He and Li Zhang. (2023).
NAIR: Network Analysis of Immune Repertoire. Frontiers in Immunology, vol. 14.
doi: 10.3389/fimmu.2023.1181825
Examples
set.seed(42)
toy_data <- simulateToyData()
net <- buildRepSeqNetwork(toy_data, "CloneSeq", print_plots = TRUE)
my_layout <- extractLayout(net$plots[[1]])
# same as `graph_layout` element in the plot list
all.equal(my_layout, net$plots$graph_layout, check.attributes = FALSE)
mlizhangx/Network-Analysis-for-Repertoire-Sequencing- documentation built on April 7, 2024, 12:02 p.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
View source: R/visualization.R
| extractLayout | R Documentation |
Get Coordinate Layout From Graph Plot
Description
Given a ggraph plot, extract the coordinate layout of
the graph nodes as a two-column matrix.
Usage
extractLayout(plot)
Arguments
plot |
An object of class |
Details
Equivalent to as.matrix(plot$data[c("x", "y")]).
Value
A matrix with two columns and one row per network node. Each row contains the Cartesian coordinates of the corresponding node.
Author(s)
Brian Neal (Brian.Neal@ucsf.edu)
References
Hai Yang, Jason Cham, Brian Neal, Zenghua Fan, Tao He and Li Zhang. (2023). NAIR: Network Analysis of Immune Repertoire. Frontiers in Immunology, vol. 14. doi: 10.3389/fimmu.2023.1181825
Examples
set.seed(42)
toy_data <- simulateToyData()
net <- buildRepSeqNetwork(toy_data, "CloneSeq", print_plots = TRUE)
my_layout <- extractLayout(net$plots[[1]])
# same as `graph_layout` element in the plot list
all.equal(my_layout, net$plots$graph_layout, check.attributes = FALSE)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.