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http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl Datamonkey Server >> Datamonkey feedback >> BS-REL update http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl?num=1358412341 Message started by lun on Jan 17^th, 2013 at 12:45am

Title: BS-REL update
Post by lun on Jan 17^th, 2013 at 12:45am

Dear Sergei,

Can I ask if BS-REL in Datamonkey has been updated?
As BS-REL could detect episodic diversifying selection in my dataset in Feb, 2012. But now, no branches found to be under episodic diversifying selection when I re-analyse it using the same set of alignment.

Best regards,
lun

Title: Re: BS-REL update
Post by lun on Jan 17^th, 2013 at 2:49am

And the episodic selection is reproducible using HYPHY 2.1.2.

Title: Re: BS-REL update
Post by Sergei on Jan 17^th, 2013 at 8:57am

Hi Lun,

The version of BS-REL on Datamonkey SHOULD be the same, but I'll confirm. My guess would be that one of the two versions does not converge properly.
Do you have a tree on >30 taxa with lots of short branches, by any chance?

Sergei

Title: Re: BS-REL update
Post by lun on Jan 17^th, 2013 at 6:09pm

Dear Sergei,

There are only 12 taxa on my tree.
I have attached it for your reference.
Many thanks.

lun

http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl?action=downloadfile;file=BRSEL_12.txt (48 KB | 2 )

Title: Re: BS-REL update
Post by Sergei on Jan 18^th, 2013 at 9:39pm

Hi Lun,

Try again please. I've synchronized the Datamonkey version and the standalone HyPhy version.

Sergei

Title: Re: BS-REL update
Post by lun on Jan 19^th, 2013 at 7:51pm

Thanks Sergei,
The results are reproducible now.