Question: Illogical Results In Tophat2 Analysis
0
Si Naftaly • 10 wrote:
Hello,
I used a Tophat 2 analysis and got 99.2% discordant in the summary,
while
in fact I checked the distance between the reads and got 170
with
std of 35 (this is the data i filled in the Tophat2).
Why did the Tophat2 test found 99.2% discordant when it should have
been
much lower?
The starting reads was 16665209, in a Bowtie2 test i got a logical
outcome
of 16567482, while on the other hand i got from Tophat2 35066991 and
34816158 - not logical.
I tried to do the same test number of times with another data and got
resemblance in the results.
In all of the tests in Tophat2 i got discordant 99% and higher.
What am i doing wrong?
What is the correct way to feed data into the test?
Thank you
Si.
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modified 4.6 years ago
by
Jennifer Hillman Jackson ♦ 25k
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written
4.7 years ago by
Si Naftaly • 10
