Description Usage Arguments Value Examples
This function plots the MDS coordinates for the "n" features of interest. Potentially uncovering batch effects or feature relationships.
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obj |
ExpressionSet object or objrix. |
comp |
Which components to display. |
normalized |
TRUE / FALSE, use the normalized matrix or raw counts. |
distFun |
Distance function, default is dist. |
distMethod |
The distance measure to be used. This must be one of "euclidean", "maximum", "manhattan", "canberra", "binary" or "minkowski". Any unambiguous substring can be given. |
n |
Number of features to make use of in calculating your distances. |
samples |
Perform on samples or genes. |
log |
TRUE/FALSE log2-transform raw counts. |
plotFlag |
TRUE/FALSE whether to plot or not. |
... |
Additional plot arguments. |
coordinates
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