On Jul 27, 2011, at 8:40 AM, oaxacamatt wrote:
Greetings all,
I have two sets of data that I would like to investigate. The first is
gene/genome related data given different 'cell-states'. The second
set of
data is relates the genes to a biological pathway. /(I think in
pictures so
here goes.)/
*dataframe1*
gene, cell-state1, cell-state2
gene1, x1, y1
gene2, x2, y2
gene.x, ..., ...
*dataframe2*
pathway1, gene-x1, gene-x2, ...
pathway2, gene-y1, gene-y2, ...
What I want to do is, see if 'cell-state1' (in-)activates different
genes /
pathways from 'cell-state2.' Furthermore, I would like to test for
correlation /(t-test and maybe graphing)/ between the cell-states 1
Vs 2 for
specific pathways.
My question is, which commands or method would allow me to do this
Do what exactly?
most easily/efficiently: *merge* or using *dummy variables*?
Here's a counter question: Why don't you post a reproducible example?
You posted an identical question to StackOverflow this morning. No
one bit on the first one and I suspect you might attract more interest
here if you read the Posting Guide and paid more attention to both its
overall message and its specifics. There is, of course, no written
rule that that you must notify rhelp readers that you are cross
posting, but it is generally considered rule to crosspost without
saying you are doing so. There is a written guideline that rhelp
queries come with reproducible code that creates an r-object that can
be tested against the output which has been unambiguously described. I
think your message fails both criteria.
--
David Winsemius, MD
West Hartford, CT
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