search

smorabit / hdWGCNA

High dimensional weighted gene co-expression network analysis
https://smorabit.github.io/hdWGCNA/
Other
316 stars 31 forks source link

change number of top genes in ModuleNetworkPlot #58

Closed Brawni closed 2 months ago

Brawni commented 1 year ago

Hello! Great package again! I was wondering if it's possible to add an argument in the ModuleNetworkPlot function to specify the number of genes to show in the network plots.

Thanks!

smorabit commented 1 year ago

Definitely something that will be done in a future update, but I don't have a plan to do it immediately.

smorabit commented 2 months ago

Finally have updated this function to be able to specify the number of genes in the inner circle and in the outer circle. Please refer to the network visualization tutorial.

ModuleNetworkPlot(
    seurat_obj, 
    outdir='ModuleNetworks', 
    n_inner = 20, # number of genes in inner ring
    n_outer = 30, # number of genes in outer ring
    n_conns = Inf, # show all of the connections
    plot_size=c(10,10), # larger plotting area
    vertex.label.cex=1 # font size
)