Description Usage Arguments Value Author(s)
Preprocess Agilent miRNA data. From a table of imported
Agilent data, add an offset, truncate, log-transform,
normalize and plot a set of Agilent microarray files.
This combines transform_Agilent_log
,
agilent.miRNA.normalise.GX10
or
normalizeBetweenArrays
, and
agilent.miRNA.filter.GX10
1 2 3 4 |
data |
a |
offset |
add an offset. see
|
min.thresh |
if any values are < this value, then
truncate them to this value. see
|
percentile |
The percentile to perform
percentile-shift normalization. only used if
norm.method=="percentile", see
|
min.Pcount |
integer exclude genes detected in fewer
than |
species |
the 3 letter code for which species of
miRNA's to include. see
|
plot |
logical: add boxplots of data during the transformation process |
do.par |
logical: configure the plotting device settings? |
norm.method |
The normalisation method to use. one
of “percentile”, “none”, “scale”,
“quantile”. If “percentile”, then make sure
you set the |
a list of log-transformed, filtered, normalised Agilent microRNA data.
Mark Cowley, 2011-08-02
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