DNAcopy package output data

The longer answer is 'yes', since the source of the
function is readily available (typing segment)

This is a Bioconductor package, so please address questions to the
Bioconductor list (instructions at
http://www.bioconductor.org/docs/mailList.html). This is not a
question related to 'development' but to use, so you do not need to
ask on the '-devel' mailing list.

Do you mean the result of 'segment'? It's always helpful to provide a
reproducible (e.g., using the example data provided with the package)
example!

I think the easy answer to your question is 'no', there are no
documented arguments influencing how statistics on the segment are
calculated. The longer answer is 'yes', since the source of the
function is readily available (typing

segment

) and the segment boundaries are returned and hence other statistics
can be calculated by the user.

Hope that helps,

Martin

"Vladmir Makarov" <vmakarov at pace.edu> writes:

Hello R Developers

I am using DNACopy package
http://bioconductor.org/packages/1.9/bioc/html/DNAcopy.html

I am not able to figure out how to (if at all possible) to modify
output format, namely, I am getting the following:
"ID"  "chrom" "loc.start"     "loc.end"       "num.mark"      "seg.mean"

Is it a way to get also median and standard deviation?

Thanks in advance,
Vlad

--
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 Dr. Vladimir Makarov
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 Pace University
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 eMail: vmakarov at pace.edu
 http://matrix.csis.pace.edu/~vmakarov/

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