Bioconductor Phenotype extraction

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microarry affymetrix microarrays phenotype extraction

updated 6.6 years ago by Axel Klenk ★ 1.0k • written 6.6 years ago by paul.elliot1994 • 0

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.cel phenotype extraction

updated 7.8 years ago by James W. MacDonald 67k • written 7.8 years ago by nia ▴ 30

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reseach phenotype extraction biomedical ontologies Job

10.2 years ago Doe, Aimee ▴ 40

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Comment: Is there a way to do DEG analysis across two batches sharing one sample only? by georgeyu703 • 0

Michael, Thank you very much!

Comment: Is there a way to do DEG analysis across two batches sharing one sample only? by Michael Love 43k

Yes, with the knowledge that, it is expected to be underpowered.

Comment: Is there a way to do DEG analysis across two batches sharing one sample only? by georgeyu703 • 0

Thank you, Michael. How? Could you provide more details? Can I just do it as usual, I mean to include batch in the model?

Answer: Is there a way to do DEG analysis across two batches sharing one sample only? by Michael Love 43k

The short answer is yes, you can use even a single sample to estimate the batch effect (and therefore control for it in otherwise confounde…

Comment: How to sort negative log2FC or FC in RNAseq for GSEA? by alserg ▴ 280

`NES > 0` means that your gene set has more genes with positive logFC/stat. In your case these genes should be up in Subset1. However, if y…

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Answer: EdgeR Biological CVs

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