Question: copy number variation
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gravatar for v27
2.0 years ago by
v2710
v2710 wrote:

I want to detect copy number variation in fungi data (paired-end, Illumina data). The data is as following:2 sensitive 2 resistant strains 1 reference

Could someone suggest me a tool for detecting CNV.

copy number variation • 539 views
ADD COMMENTlink modified 22 months ago by Dattatray Mongad350 • written 2.0 years ago by v2710

Did you see Copy Number Variation Tools question that was asked before ?

ADD REPLYlink modified 2.0 years ago • written 2.0 years ago by arta580
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gravatar for Dattatray Mongad
22 months ago by
National Centre for Cell Science, Pune
Dattatray Mongad350 wrote:

Just map the known genes on processed reads and note down the number of times they aligned. Use appropriate alignmnet parameters. You can use bowtie aligner. At last you will have number of times each gene aligned in both samples. Relatively, you can conclude on gene copy number variation, provided that the sequencing depth is same for both the samples.

ADD COMMENTlink written 22 months ago by Dattatray Mongad350
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