Question

Simulate 1, 3 Copies

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12.9 years ago

Ann ▴ 10

Dear all,

Is there any tools that can simulate 1, 3, 7..CNVs?

Thanks!

Ann

next-gen sequencing • 2.4k views

ADD COMMENT • link updated 12.9 years ago by Ann • 0 • written 12.9 years ago by Ann ▴ 10

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simulate reads? you need to provide more information on what it is you want to simulate.

ADD REPLY • link 12.9 years ago by Damian Kao 16k

score 1 · Answer 1 · 2011-12-20

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12.9 years ago

Neilfws 49k

I suggest you search Google and/or PubMed for the terms "copy number variation" and "simulated data." There is a lot of literature on CNV detection and the authors often generate simulated data in order to test their algorithms. A good article will give details of the simulation process.

ADD COMMENT • link 12.9 years ago by Neilfws 49k

biobot 0.0.77.a.1099 · Answer 2 · 2011-12-20

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12.9 years ago

Ann • 0

Thanks!

@DK: Sorry! I didn't give enough information, simulating paired-end reads.

I inserted and deleted some regions of fasta files to make CNVs of genes; after that Wgsim to simulate.

But I'd like to look for a software making real CNVs, especially: heterogeneous copy numbers.

ADD COMMENT • link updated 12.9 years ago by biobot 0.0.77.a.1099 6.2k • written 12.9 years ago by Ann • 0

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If you have more information to add, please edit your original question instead of putting it here. This helps maintain the quality of Biotstar's answers. Thanks.

ADD REPLY • link 12.9 years ago by biobot 0.0.77.a.1099 6.2k