[mira_talk] Re: virus genome assembly
- From: Bastien Chevreux <bach@xxxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Thu, 22 May 2014 21:40:18 +0200
On 22 May 2014, at 21:28 , Laurent MANCHON <lmanchon@xxxxxxxxxxxxxx> wrote:
>> That being said, maybe your problem can be reduced a bit. You wrote detected
>> … does that mean “counting” of known variants or “discovery” of new variants?
>
> just counting
>
>>
>> For counting of known variants, what I’d do would be a simple test by simply
>> putting all splicing variants
>
> this is here my question, how to select or isolate this bag of splicing
> variants from mira results ?
Ummm … if these are known variants you want to count, you have the sequence of
those right? Then make a fasta file with these, map your reads against these
(strict settings etc.), then look up in the statistics file of MIRA how many
reads mapped. Or am I missing something here?
B.
--
You have received this mail because you are subscribed to the mira_talk mailing
list. For information on how to subscribe or unsubscribe, please visit
http://www.chevreux.org/mira_mailinglists.html
Other related posts:
