Bioconductor Deseq2

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DESeq2 RNAseq

written 2 hours ago by kcarey • 0

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DESeq2

updated 7 hours ago by Michael Love 41k • written 11 hours ago by andrebolerbarros ▴ 20

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DESeq2

updated 2 hours ago by swbarnes2 ★ 1.3k • written 11 hours ago by winwater0928 • 0

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144

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DESeq2

updated 17 hours ago by Michael Love 41k • written 1 day ago by i.sudbery ▴ 40

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108

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DESeq2 RSTUDIO PCAtools

updated 2 hours ago by swbarnes2 ★ 1.3k • written 1 day ago by Aaliya • 0

5 results • Page 1 of 1

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Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k

You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by swbarnes2 ★ 1.3k

Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…

Comment: get BM error by James W. MacDonald 65k

I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…

Comment: get BM error by Fara • 0

Thank you for your response. The primary reason for translating Ensembl IDs into Entrez Gene IDs is to perform KEGG (Kyoto Encyclopedia of…

Comment: Error for AnnotationForge makeOrgPackageFromNCBI function by James W. MacDonald 65k

That's weird. I don't have any problem at all generating the `OrgDb` on my box. How big is the gene2pubmed.gz file? I get this: ``` gzip -…

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Answer: get BM error

C: SGSeq: moving toward diffex from SGSeq analysis

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