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Answer: can negative value microarray matrix data analysed by limma directly
limma is routinely used for all the preprocessing methods that you mentioned, and some of them are covered in the limma User's Guide. No…
Answer: how can I do gene differential analysis on data after vst
Differential expression analysis of vst values can be performed by limma-trend.
Answer: Performing DE analysis using edgeR for PhIP-seq data with multiple samples, some
edgeR does not require replicates for every group, so there is no problem with that. I can't make any comments on your code however. You d…
Comment: BiocGenerics package: 404 error during R shiny app deployment
Hi, Were you able to find a solution? I'm having the same issue due to usage of a BioConductor package.
Comment: GSEABase - View/extract GO terms mapped to each GOslim
Alrighty, figured this out! Here's the full code, including the initial mapping step described in the accepted answer above, and subsequent…
Answer: Failed to install Biobase
Answer: Latest version of ggtree (3.6.2) unavailable on Anaconda. Only 3.6.0 exists.
BiocGenerics package: 404 error during R shiny app deployment
Comment: does anyone how to create rarefaction curves from a phyloseq object?
Answer: HISAT2 mapping
James W. MacDonald
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