View source: R/network_utils.R
def_net_module2 | R Documentation |
Run for loops to detect the block Detect edge genes in each block and their gene idx Go back to the original 100x100 matrix and use the edge genes (idx) to define block
def_net_module2(core_sub_jaccard_dist, sub_jaccard_dist, min.connectivity = 0.2, min.size = 5, start_idx = 1, allow.gap = 1)
core_sub_jaccard_dist |
preprocessed sub_jaccard_dist matrix (after applying filter, binarized the data) |
sub_jaccard_dist |
zoomed-in small block size of jaccard_dist |
min.connectivity |
threshold for minimum connectivity (set to 75% quartile in each block) |
min.size |
threshold for minimum block size |
start_idx |
specifiy what is the index for the starting gene in the block |
allow.gap |
allow how man gaps between each sub-modules |
def_net_modules2(core_sub_jaccard_dist, sub_jaccard_dist, min.connectivity=0.2, min.size=5)
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