Description Usage Arguments Details Value Author(s) See Also Examples
Simple function for correlation analysis. This function computes a null distribution via permutation and returns the significant correlation values.
1 |
x |
A matrix or data frame. |
sig |
Significance threshold. |
p.adj.method |
Correction method passed to "p.adjust" function. |
cor.method |
Correlation method passed to "cor" function. |
nper |
Number of permutations. |
plotcea |
Logical value, option to plot density and the null distributions. |
... |
Additional arguments passed to plotcea option. |
Additional arguments:
If plotcea=TRUE, 'n.breaks' sets the number of histogram breaks (Default=100 <integer>).
If plotcea=TRUE, 'plotnull' sets whether to plot the null distribution (Default=TRUE <logical>).
If plotcea=TRUE, 'avnull' takes the average null distribution (Default=TRUE <logical>).
If plotcea=TRUE, 'nullcol' sets the color of the null distribution (Default="black" <character>).
An adjacency matrix with significant correlation values.
Mauro Castro
1 2 3 4 5 6 7 8 9 10 11 12 |
***This is RedeR 1.24.1! For a quick start, please type 'vignette('RedeR')'.
Supporting information is available at Genome Biology 13:R29, 2012,
(doi:10.1186/gb-2012-13-4-r29).
Step 1 ...computing correlation
Step 2 ...computing null distribution
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Step 3 ...computing probs
Step 4 ...adjusting pvals
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