Plot the histogram of max gene illumination across all arrays to identify cutoff for background subtraction. Upper and lower limits can be changed to narrow focus. Plots will be saved in analysis pipeline directory.
1 2 | BackgroundCutoff(preprocess.data.obj, method=c("mloess","quantile",
"raw"), xlim.lo=0, xlim.hi)
|
preprocess.data.obj |
Object returned from call to preprocess.data |
method |
Type of normalization to use: "quantile" for quantile normalization; "mloess" for MLOESS normalization; "raw" for raw data |
xlim.lo |
Lower bound on X for histogram plot (binary logarithm) |
xlim.hi |
Upper bound on X for histogram plot (binary logarithm) |
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