[mira_talk] Re: where are the singlets ?
- From: "visam" <teutara@xxxxxxxxxxx>
- To: <mira_talk@xxxxxxxxxxxxx>
- Date: Fri, 23 Mar 2012 09:21:50 +0200
@Mr. Chevreux,
There is more than enough I guess, thank you for your effort, I mean from
the start to here..
Visam
--------------------------------------------------
From: "Bastien Chevreux" <bach@xxxxxxxxxxxx>
Sent: Friday, March 23, 2012 12:36 AM
To: <mira_talk@xxxxxxxxxxxxx>
Subject: [mira_talk] Re: where are the singlets ?
On Mar 22, 2012, at 21:10 , visam wrote:
Might be a bit "off topic" but, when u say "34k out of 84k", can you
please give some more info about that?
Sanger sequencing = costly, very. Having ~60% of the data treated as junk
is a catastrophe for any Sanger sequencing project, normally I'd say the
upper limit is somewhere between 1 and 5% (at least from projects I've
seen in the past).
Count something like at least USD 3 to 4 per read (someone correct me on
those numbers if I am way off target). Having 50k reads not assembling
amounts to at least USD 150k - 200k of wasted money. And I cannot imagine
such a thing really happening, too much money involved.
Couple that with the info she gave earlier: MIRA warning about megahubs
... which should, really, never occur in well clipped Sanger projects of
bacteria. You'll quickly land at the hypothesis that somewhere, something
went very wrong. Clipping is my main suspect here.
IF she's working on a bacterium, that is. In case these are viruses, small
plasmids, mitochondria or other - uh - interesting targets, things can get
ugly (quite quickly so).
BTW, i am jealous about the answer you post for Isabelle's earlier
post, i do thank you on top of her's. Please follow this habit.
It's a fine line people are walking when developing and supporting OSS.
The term "time management" becomes quite important then.
I suppose I behave pretty much foreseeable: of course my answers depend on
my available time, but much more on the way people ask and what
information they give to pinpoint their problem, whether or not they first
tried to search for answers themselves and willingness to read things they
are pointed to. In short: I'll help where I can as long as I do not get
the impression I'm wasting my time on people who try to abuse me (or other
people in communities which try to help).
B.
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