Recommendation for CNV detection software in Illumina WGS data for cancer cells

yuhao · 08-09-2012, 01:58 PM

Can anyone recommend some reliable software for CNV detection in cancer cells for Illumina WGS data?

stefanoberri · 08-10-2012, 01:49 AM

Hi

I am the developer of CNAnorm which is designed for normalisation, segmentation, GC correction and plotting of copy number data from very low coverage (~ 0.05X) whole genome sequencing. It also works with higher coverage (obviously takes more time and you will need a few tweeks) and some report using it sucesfully on exome capture data.

Please read this post where other users posted their questions and I provided some suggestions.

good luck

yuhao · 08-11-2012, 10:59 AM

Hi, stefanoberri, I am not able to access the paper for CNAnorm, could you mind to send me the paper in mailbox: hhhyyyccc@gmail.com? I appreciate it !

stefanoberri · 08-15-2012, 08:22 AM

Hi, sorry for the late reply.

Here you can find the preprint of the article and the supplemental material

yuhao · 08-15-2012, 09:42 AM

I am not able to open the link, could you send the article to me in : hhhyyyccc@gmail.com

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08-09-2012, 01:58 PM	#1
yuhao Member Location: beijing Join Date: Jul 2012 Posts: 33	Recommendation for CNV detection software in Illumina WGS data for cancer cells Can anyone recommend some reliable software for CNV detection in cancer cells for Illumina WGS data?

08-15-2012, 08:22 AM	#4
stefanoberri Member Location: Cambridge area, UK Join Date: Jan 2010 Posts: 35	Hi, sorry for the late reply. Here you can find the preprint of the article and the supplemental material Last edited by stefanoberri; 08-15-2012 at 09:47 AM.

08-10-2012, 01:49 AM	#2
stefanoberri Member Location: Cambridge area, UK Join Date: Jan 2010 Posts: 35	Hi I am the developer of CNAnorm which is designed for normalisation, segmentation, GC correction and plotting of copy number data from very low coverage (~ 0.05X) whole genome sequencing. It also works with higher coverage (obviously takes more time and you will need a few tweeks) and some report using it sucesfully on exome capture data. Please read this post where other users posted their questions and I provided some suggestions. good luck

08-11-2012, 10:59 AM	#3
yuhao Member Location: beijing Join Date: Jul 2012 Posts: 33	Hi, stefanoberri, I am not able to access the paper for CNAnorm, could you mind to send me the paper in mailbox: hhhyyyccc@gmail.com? I appreciate it !

08-15-2012, 09:42 AM	#5
yuhao Member Location: beijing Join Date: Jul 2012 Posts: 33	I am not able to open the link, could you send the article to me in : hhhyyyccc@gmail.com