wTO.export | R Documentation |
Exports the significative interactions, the wTO weight and pvalues into a .txt file, tab separeted. This file can be imported in other visualization tools (Cytoscape for example).
wTO.export(DATA, path, sign = TRUE, pvalue = 0.05, padj = 0.05, prop.NA = 0.5)
DATA |
Output from the function wTO.Complete or wTO.Consensus. |
path |
Path and file name where the .txt file should be saved. |
sign |
Should the network contain the results for the signed network or unsigned? Only for data coming from wTO.Complete. |
pvalue |
cutoff p-value for the network. Only for data coming from wTO.Complete. |
padj |
cutoff adjusted p-value for the network. Only for data coming from wTO.Complete. |
prop.NA |
cutoff proportion of NAs for the network. Only for data coming from wTO.Consensus. |
## Not run: EXAMPLE = wTO.Complete( k =1, n = 200, Data = Microarray_Expression2, Overlap = ExampleGRF$x, method = "p") wTO.export(EXAMPLE , './EXAMPLE.txt') #Selection of only the significative ones for the Consensus Ex_k1_cor_p_boot_p005_sig = subset(EXAMPLE$wTO, EXAMPLE$wTO$pval_sig < 0.05, select = c("Node.1", "Node.2", "wTO_sign")) Ex_k1_cor_p_boot_p005_abs = subset(EXAMPLE$wTO, EXAMPLE$wTO$pval_abs < 0.05, select = c("Node.1", "Node.2", "wTO_abs")) # Constructing the consensus network CN = wTO.Consensus(data = list(Ex_k1_cor_p_boot_p005_sig, Ex_k1_cor_p_boot_p005_abs)) wTO.export(CN, './CN.txt') ### You can store the result on the workspace. y = wTO.export(CN, './CN.txt') head(y) ## End(Not run)
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