Biostar Ggbiplot

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bioconductor pca ggbiplot expresiondataset

updated 8.0 years ago by James W. MacDonald 62k • written 8.0 years ago by svlachavas ▴ 800

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r pca rnaseq edger ggbiplot

updated 4.8 years ago by James W. MacDonald 62k • written 4.8 years ago by Biologist ▴ 110

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Answer: Why in Bioconductor community people rarely upvote questions? by Lluís Revilla Sancho ▴ 710

I think there are several causes: - Contrary to Stack Overflow (SO) it is not clear what does an up vote mean : In the summary all the v…

Comment: mas5calls function doesn't work; mirna40cdf problem by James W. MacDonald 62k

The `paCalls` function in `oligo` is meant to do the MAS5.0 calls that you could have previously done using `mas5calls` with the `affy` pac…

Answer: EdgeR model matrix by James W. MacDonald 62k

It's not missing. You are using a treatments contrast, where one level is defined as the baseline (the intercept), and all other levels are…

Answer: Create an Annotation DB file for a non-model organism by James W. MacDonald 62k

You can make an `OrgDb` package using `makeOrgPackage` from the `AnnotationForge` package.

Comment: Error in `$<-.data.frame`(`*tmp*`, "dispersion", value = NA) by Ben J • 0

Many thanks for the advice - I will try this and get back to you if I have further issues. BW Ben

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Answer: EdgeR model matrix

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