Multivariate Stepwise Analysis

[Garth]

Hi Everyone. I tried to run this analysis but received the error 'ibeta:domain error'. MLM analysis runs to completion so assume the input files are okay. Has anyone had success running the new multivariate stepwise analysis?

[Chris Toomajian]

I have run the Multivariate Stepwise Analysis without error on a small dataset (2 traits, 152 haploid individuals, <5000 SNPs).

I am not 100% sure that I don't have an error, however, or that I am not doing something wrong.

My problem is that I cannot find any documentation in the Tassel Manual to help me choose run parameters, or interpret the results returned (essentially short lists of SNPs with approx_F and probF values included for each). I need to dig more in the published Plant Genome paper on this, but I don't think that really includes any specifics on input/output for the TASSEL analysis.

A Manual update with specifics on the multivariate stepwise analysis would be great!