Thats wonderful. It does what i want to. Thanks a bunch.
From: Julian Parkhill [parkh...@sanger.ac.uk]
Sent: Wednesday, December 14, 2011 12:41 AM
To: Gowthaman Ramasamy
Subject: Re: [Artemis-users] Customizing crunch file in ACT...
The right hand scroll bar controls the display of links based on size of the
hit (removing shorter hits up to 1kb). If you want to control the display based
on the score, then right click in the centre window and select "Set Score
On 13 Dec 2011, at 23:20, Gowthaman Ramasamy wrote:
> Hi Everyone,
> I trying to trick ACT to display linking bars from two different blast out
> I have a chromosome at one side and newly scaffolded chromosome on the other
> side (generated by ordering of contigs using Abacas). I want to display two
> kinds of link between them.
> 1. crunch file from Abacas. To show matching/ordered contigs. So there will
> be only few super wide bars.
> 2. tblastx outfile between these chromosomes (used MSPcrunch to match with
> Abacas outfile output)
> I manually fuse both the files and use in ACT. It display links from both.
> But, I want to make abacas crunch disappear most of the time.
> My naïve attempt was to change score in the Abacas crunch file to"zero"
> artificially, so that I can block that link using the ACT 's middle window
> scroll bar. But, it does not respond. I mean, it does not control the display
> based on score.
> But, when I load un modified blastout file (with -m 9) option, it seems to
> control the display. Is it something a known issue.
> Better, yet, is there any better way to use two different crunch/blast out
> PS: I can load one chromosome twice. But, anything else?
> Artemis-users mailing list
Tel: +44(0)1223 494902
The Wellcome Trust Sanger Institute is operated by Genome Research
Limited, a charity registered in England with number 1021457 and a
company registered in England with number 2742969, whose registered
office is 215 Euston Road, London, NW1 2BE.
Artemis-users mailing list