Multifactor RNA-Seq Analysis and interaction terms
One of the labs I
work with regularly uses Galaxy for their RNA-Seq analysis. They
have been doing very simple analyses up to this point, using
DESeq2. However, they are moving toward more complicated
experimental designs that will include additional factors, some
of which (genotype for example) will be interaction
terms. I have a few questions:
I know Marius
van den Beek added group
tags in 18.09, which seem like they are at least one
way to use multiple factors along with collections. Is there
any primer/tutorial on using these? It’s not quite clear to
me just yet.
Does anyone have any thoughts or suggestions as
to how one could add interaction terms (e.g.condition:genotype)
to the DESeq2 wrapper? Does this functionality exist in a
different Galaxy tool?
Thanks in advance.
Lance Parsons - Scientific Programmer
Carl C. Icahn Laboratory - Room 136
Lewis-Sigler Institute for Integrative Genomics
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