Description Usage Arguments Value Author(s)
Preprocess Agilent miRNA data Preprocess raw Agilent data, then threshold it to a minimum value, log transform, normalise each array such that the 75th percentile is 0.0, throw away miRs from other species, and keep those that are detected at least min.Pcount times. Optionally makes a 2x2 portrait layout plot @ each step. This is the default procedure by GeneSpring GX 10 (not sure about newer versions)
1 2 3 | agilent.miRNA.preprocess.GX10(data, min.thresh = 1,
percentile = 0.75, min.Pcount = 1, species = "mmu",
plot = FALSE, do.par = TRUE)
|
data |
a |
min.thresh |
if any values are < this value, then
truncate them to this value. see
|
percentile |
The percentile to perform
percentile-shift normalization. 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? |
a set of thresholded, log-transformed, filtered, normalized Agilent miRNA data
Mark Cowley, 2009-07-22
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.