Question: Bowtie Fp And Fn - How To Find ?
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gravatar for Arpssss
7.9 years ago by
Arpssss40
Arpssss40 wrote:

I am using BowTie 1 to find alignments of 150 bp reads. Can anybody help me how to find how much False Positive and False Negative it gave ?

bowtie • 1.3k views
ADD COMMENTlink modified 7.9 years ago by Arun2.3k • written 7.9 years ago by Arpssss40
2
gravatar for Arun
7.9 years ago by
Arun2.3k
Germany
Arun2.3k wrote:

Well in reality, there's no way of knowing it. However to assess the performance of softwares (probably, to choose the best, if you wish), you could simulate data (you would then know the expression of every "expressed" transcript and location of every read corresponding to that transcript) using softwares like flux-simulator and map it using your favorite softwares and get an estimate the percentage of FP.

ADD COMMENTlink modified 7.9 years ago • written 7.9 years ago by Arun2.3k
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