User: fcamus

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fcamus0
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Posts by fcamus

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Comment: C: edgeR: setting up proper contrasts for interactions
... Many thanks Aaron for your input,  I guess what we are thinking about is clustering the genes we have based on their significance, and not really dwelling too much into fold change (for this analysis). For instance we want to say "X number of genes respond to diet, sex, status, sex:status ... diet: ...
written 3 months ago by fcamus0
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edgeR: setting up proper contrasts for interactions
... Hi all,  I am curious on how to go about setting up proper contrasts to test for interactions. The experimental design I have is 2 diets (B & E) 2 sexes (Male vs Fem) 2 reproductive status (M vs V) There are 3 biological replicates, making a total of 24 samples (libraries).  I have setu ...
limma edger written 3 months ago by fcamus0 • updated 3 months ago by Aaron Lun21k
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EdgeR model matrix: interaction term
... Hi all, I'm in the process of analysing my RNASeq data and had a couple of question about setting up the model matrix to get the comparisons I want.  First of all my experimental setup is looking at genes that respond to diet in males and females.  > Protein-Female > Carbohydrate-Female > ...
edger written 6 months ago by fcamus0 • updated 6 months ago by Aaron Lun21k
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edgeR: Subset DGEList by treatment-specific expression
... Hi all, I am working with expression data and comparing males and female gene expression on two different diets (using edgeR). The first thing I would like to do is separate my DGEList element into three components. genes that are only expressed in females genes that are only expressed in males ...
rnaseq edger written 6 months ago by fcamus0 • updated 6 months ago by Aaron Lun21k

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