Can I used R/qtl2 with in-house generated mouse line with 4 parental strains?

[123]

Hi guys,

A four-way advanced intercross line was generated and

there are dozens of phenotypes are available.

I wonder if one can use R/qtl2 to do full QTL analysis....

A colleague told me that R/qtl2 can be used only with

"the mice stored in R/qtl2 associated database".

Is that true? Sorry is the question is silly.

Thank you.

[Karl Broman]

The goal of R/qtl2 is to be able to handle any kind of multi-parent population. But it does have specific requirements for data input files, and it’s likely that some work will be done to reformat the data.

See https://kbroman.org/qtl2/assets/vignettes/input_files.html

karl

On Jul 10, 2022, at 5:17 AM, 123 <stanis...@gmail.com> wrote:



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[123]

Prof. Broman, thank you for your quick reply.

Indeed, conversion from .bed/bim/fam is likely to be a challenge for me.....