[mira_talk] Re: virus genome assembly
- From: Bastien Chevreux <bach@xxxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Thu, 22 May 2014 22:24:59 +0200
On 22 May 2014, at 22:12 , Laurent MANCHON <lmanchon@xxxxxxxxxxxxxx> wrote:
> […]
> arghhh, not so easy,
> i have one reference sequence (HIV genome sequence)
> second i have 2 cDNA libraries 454: libA_treated and libB_not_treated
> we know that we have some RNA spliced in libA
> but we don't know how many and which.
> The problem is to analyze this differential expression between libA and libB
> and
> and highlight the spliced RNAs.
> How to procced ? --> map libA on HIV genome, then map libB
> and finally compare the two resulting sam files if you can find information
> on splicing ?
Indeed … not see easy and I am out of options here. I’d probably need to see
the data and play around with it to get a feeling of what the best approach
could be, but … nope, I’m not gonna do that :-)
B.
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