Hi Gordon,
Thank you so much! That's exactly what I was looking for.
-Ryan
On Sun 01 Sep 2013 03:15:06 PM PDT, Gordon K Smyth wrote:
Dear Ryan,
See contrastAsCoef() in limma 3.17.23.
Best wishes
Gordon
---------------------------------------------
Professor Gordon K Smyth,
Bioinformatics Division,
Walter and Eliza Hall Institute of Medical Research,
1G Royal Parade, Parkville, Vic 3052, Australia.
http://www.statsci.org/smyth
On Thu, 29 Aug 2013, Ryan C. Thompson wrote:
Hi Gordon,
I am currently working on some code that would benefit from having
direct access to the code in edgeR::glmLRT that handles
reparametrizing the design matrix so that the N linearly independent
components of the specified contrasts are represented in the first N
columns of the design matrix (i.e. the part of glmLRT that does all
the QR decomposition stuff). Would you consider splitting this logic
into a separate function that takes a design matrix and contrast
matrix and returns the equivalent reparametrized design matrix and
vector of coefficients?
Thanks,
-Ryan Thompson
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