Hi.
On Fri, Dec 9, 2011 at 7:02 PM, Steven McKinney wrote:
> Dear Henrik
>
> Thanks to your instructions, I have set up and run initial processing on my
> tumour - normal pairs for copy number analysis. However I am as yet
> unable to determine how to hand off the processed data to CbsModel
> or
Hi,
On Mon, Dec 12, 2011 at 1:15 PM, Greg Wall wrote:
> CORRECTION:
>
> ref.theta <- extractMatrix(Normal)
> theta <- extractMatrix(Tumor)
> C <- 2 * theta/ref.theta
>
>
> On Mon, Dec 12, 2011 at 1:09 PM, Gregory W wrote:
>>
>> Hello,
>>
>> Many thanks for the site and quick feedba
Hi,
you'll find old
On Thu, Dec 8, 2011 at 12:03 PM, wisekh6 wrote:
> Dear Henrik,
> I am looking for the old na30 (hg18) annotation files for SNP6 that
> are necessary for running CRMA v2.
Not sure what you mean by "old [...] that are necessary"; you
obviously use the newer ones too.
> I don'
CORRECTION:
ref.theta <- extractMatrix(Normal)
theta <- extractMatrix(Tumor)
C <- 2 * theta/ref.theta
On Mon, Dec 12, 2011 at 1:09 PM, Gregory W wrote:
> Hello,
>
> Many thanks for the site and quick feedback to the discussion board.
>
> I was hoping to get a little clarification a
Hello,
Many thanks for the site and quick feedback to the discussion board.
I was hoping to get a little clarification about the difference
between these two statistics: Raw CN and CBS mean.
After running CBS I get the following data frame:
cbs <- CbsModel(tumor, normal, min.width=5, alpha = .