pick_soft_threshold: Pick soft threshold for WGCNA
In jeffreyLbrabec/tinker: Tissue Network Knowledge Transfer

Description Usage Arguments Value Examples

View source: R/pick_soft_threshold.R

Pick soft threshold for WGCNA

1	pick_soft_threshold(expression_data = NULL, type_of_network = "signed")

`expression_data`	The output from 'extract_expr_data'; a table of just expression data.
`type_of_network`	The 'pickSoftThreshold' function of the 'WGCNA' package can use either signed, unsigned, or hybrid signed or unsigned networks for soft thresholding. The 'WGCNA' documentation recommends "signed" be used and that is the default for this function.

A figure containing two graphs from which to find the number to use for soft-thresholding.

gse <- download_gse_data("GSE108000")

num_data <- extract_expr_data(gse)

soft_thresholds <- pick_soft_threshold(num_data, type_of_network = "signed")