Description Usage Arguments Details Value Author(s) Examples
Counts median of intensities for multiple probes that target one gene/transcript.
1 | MiSummarize(Matrix, sep, method = "median")
|
Matrix |
numeric matrix of intensities data where each row corresponds to a probe (gene, transcript),
and each column correspondes to a specimen (patient).
Row names of |
sep |
a character string to separate the terms in probe IDs. |
method |
character string specifying summarization method. Possible values are "median" and "mean". |
This function is used for summarizing expression intensities data when multiple probes target
one gene/transcript. Row names of Matrix
should contain probe IDs that consist of 3 terms:
"Gene name - sep - transcript name - sep - probe name" (for example, "AGTR2.ALL" - for gene, only one probe;
"AGTR2.NM_000686.z1" - 1st probe to AGTR2 NM_000686 mRNA transcript).
gene/transcript expression matrix with median/mean of expression intensities for each gene/transcript.
Elena N. Filatova
1 2 3 4 5 6 | data("IMexpression") # load data
# See 5 zonds to AGTR2.NM_000686
IMexpression [1:10, 1:5]
SumMatrix<-MiSummarize(IMexpression, sep=".")
# now there is median expression for AGTR2.NM_000686
SumMatrix[ 1:10, 1:5]
|
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.