Question: How And Where To Retrieve The Cnv Information From The Breakdancer Results
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gravatar for luofei.whu
5.7 years ago by
luofei.whu0
luofei.whu0 wrote:

Hi everybody As known, breakdancer uses the pair end way to call cnv. Its readme file says that with the CPP version, it's possible to call the copy number variants. However, I only found INS, INV, DEL, ITX, CTX five aberration types in the results. Anybody could tell me where I could find the cnv results information. Thanks in advance.

breakdancer cnv • 1.5k views
ADD COMMENTlink modified 5.7 years ago by Chris Miller20k • written 5.7 years ago by luofei.whu0
1
gravatar for Chris Miller
5.7 years ago by
Chris Miller20k
Washington University in St. Louis, MO
Chris Miller20k wrote:

Breakdancer doesn't call copy number variants. It calls structural variants. If you see a large deletion in breakdancer, it may be the case that a copy number deletion has occurred. It's also possible that the deleted sequence got re-integrated somewhere else, in which case, there would be no effect on copy number.

ADD COMMENTlink written 5.7 years ago by Chris Miller20k
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