Bioconductor Book machine learning

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book machine learning

updated 10.2 years ago by Steve Lianoglou ★ 13k • written 10.2 years ago by Asma rabe ▴ 290

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Comment: Explannation for ROAST results by Jay • 0

Yes! Tnx for your reply. I didn't notice the group design problem, so stupid. Thank you!

Answer: Explannation for ROAST results by ATpoint ★ 4.7k

The `contrast = 2` in an intercept-less design test whether the expression in the 2nd group is not 0. You can easily solve this by using `~…

Comment: Explannation for ROAST results by Jay • 0

BTW, AP1 is a character, composed of gene entrez ID, so is HIF1, UPR, etc al. And the rownames of `expr.i` is also gene entrez ID.

Comment: DESEQ2 looking at main effects while controlling for a continuous variable by Lennie • 0

Thanks James for your help! Sorry I am still a bit confused about the numerical contrast. In your example of c(0,1,0,0,0), where you are …

Answer: Merging annotation with differential expression output by James W. MacDonald 68k

This is just a general R question that you should be able to easily answer by using Google. Or you could ask on stackoverflow or biostars, …

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clusterProfiler-GO enrichment Error

A: Machine learning in R book

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