User: smhughes

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smhughes10
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Posts by smhughes

<prev • 5 results • page 1 of 1 • next >
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Comment: C: limma: include samples from multiple treatments?
... Thank you very much for your helpful explanation! ...
written 4 months ago by smhughes10
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limma: include samples from multiple treatments?
... I have Illumina HT-12 microarray data from a crossover study. There are samples at study start, after treatment period 1, and after treatment period 2. All subjects had samples at each time point. All subjects had treatment A and treatment B (half of the subjects had Aduring treatment period 1 follo ...
microarray limma written 4 months ago by smhughes10 • updated 4 months ago by James W. MacDonald51k
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Answer: A: Can't install 'lumi'
... I had this problem as well, and was able to successfully install the package by installing from source from github.  # install.packages("devtools") # if you don't have it devtools::install_github("Bioconductor-mirror/lumi")   ...
written 2.9 years ago by smhughes10
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Comment: C: Limma design matrix for three-treatment crossover study
... Thank you very much for taking the time to respond. Your answer was helpful and clear. I have taken a look at a few of the combinations of treatments and orders as you advised and they haven't turned up anything, so most likely I will revert to the simpler model once I have time to examine all of th ...
written 2.9 years ago by smhughes10
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Limma design matrix for three-treatment crossover study
... We performed Illumina HT-12 microarrays on samples from a three-treatment crossover study. We want to determine what effects the treatments had on gene expression relative to baseline. I am hoping for some help with setting up the design matrix. There were 36 subjects, each of whom contributed a bas ...
limma limma design matrix limma contrast matrix crossover study written 2.9 years ago by smhughes10 • updated 2.9 years ago by Aaron Lun24k

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