On Mon, Dec 16, 2013 at 12:03 PM, Emilie emilie.lalo...@gmail.com wrote:
Yep, I think you're right, for this sample there are many points away from
the y=x line.
https://lh4.googleusercontent.com/-rLT39dQUYe0/Uq9aLgEKsPI/KWY/Uv1cJZGoVTo/s1600/2013-12-16_KB170TvsKB170B_beta_TvsN.png
On Fri, Dec 13, 2013 at 11:15 AM, Emilie emilie.lalo...@gmail.com wrote:
Thanks again Henrick. I do see 3 bands, but not sure they are necessarily
clean/distinct.
https://lh5.googleusercontent.com/-yPngBXg2loA/Uqtcqi2z4YI/KWI/mcUOS0DWiyQ/s1600/2013-12-13_KB170B_BAF.png
These normal
Pierre beat me to this one. Comments below...
On Thu, Dec 5, 2013 at 9:20 AM, Pierre Neuvial
pierre.neuv...@genopole.cnrs.fr wrote:
Hi Emilie,
OK, so you are referring to the “smooth.CNA function in the DNAcopy
package, cf
Hi Pierre,
Thanks for your answer. I may be wrong but I thought smoothing prior to
segmentation was somewhat common. It is shown in the vignettes for DNACopy
and seems to be fairly common in the literature (this approach was used in
the Metabric paper for example,
Hi there,
I'm new to processing Affy SNP6 chips and so am mainly experimenting with
different methods to date. I ran CRMAv2 and followed steps 1-4 from the
vignette (http://aroma-project.org/vignettes/CRMAv2). For step 5, I want to
do a paired analysis.
Previously I've used DNAcopy to perform
Hi Emilie,
It's certainly possible to do this within the Aroma framework (e.g. using
the function binnedSmoothing). It's probably not as straightforward as
running the segmentation directly, though, because this is not a typical
use case.
In fact, I'm not sure why you want to perform smoothing
