[R] Stepwise rQTL-unknown warning message and odd QTL curve
claire.oquin at uky.edu
Sat May 23 16:30:04 CEST 2015
Thank you for that information. I have found an rQTL help group and will
try to see if folks over there can help. I apologize for not doing a very
good job of communicating my issues over here. I will try my best to
produce a reproducible example and post it here if I don't make any
progress on resolving my issues. Thank you everyone for your time.
On Sat, May 23, 2015 at 10:16 AM, John Kane <jrkrideau at inbox.com> wrote:
> and http://adv-r.had.co.nz/Reproducibility.html
> John Kane
> Kingston ON Canada
> > -----Original Message-----
> > From: ligges at statistik.tu-dortmund.de
> > Sent: Sat, 23 May 2015 09:36:15 +0200
> > To: claire.oquin at uky.edu, r-help at r-project.org
> > Subject: Re: [R] Stepwise rQTL-unknown warning message and odd QTL curve
> > On 23.05.2015 01:07, Claire O'Quin wrote:
> >> Hi There,
> >> I am running a stepwise QTL for a backcross and got the following
> >> warning
> >> message:
> >> Warning message:
> >> In lastout[[i]] - (max(lastout[[i]]) - dropresult[rn == qn[i], 3]) :
> >> longer object length is not a multiple of shorter object length
> > So dimensions of the arguments may not match?
> >> I can not discern what this means. When I created my plot, the QTL curve
> >> on
> >> chromosome 3 is very odd (tried attaching it), so I suspect that the
> >> warning is connected to that odd curve plot.
> >> I tried running the fitqtl just to see what would happen and got an
> >> error
> >> (Error in solve.default(t(Z) %*% Z, t(Z) %*% X) : system is
> >> computationally
> >> singular: reciprocal condition number = 1.49755e-24).
> >> Any thoughts about what is going on?
> > No, without knoing what the arguments and the actual code was.
> > Best,
> > Uwe Ligges
> >> Thank you,
> >> Claire
> >> -----------------------------------
> >> Claire O'Quin, PhD
> >> Postdoctoral Research Scholar
> >> University of Kentucky
> >> http://www.linnenlab.com/home.html
> >> ______________________________________________
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> >> and provide commented, minimal, self-contained, reproducible code.
> > ______________________________________________
> > R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> > https://stat.ethz.ch/mailman/listinfo/r-help
> > PLEASE do read the posting guide
> > http://www.R-project.org/posting-guide.html
> > and provide commented, minimal, self-contained, reproducible code.
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Claire O'Quin, PhD
Postdoctoral Research Scholar
University of Kentucky
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