Bioconductor Syntenet

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syntenet synteny Network

written 17 months ago by Alexandros • 0

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1.3k

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syntenet

updated 3 months ago by Sujeevan • 0 • written 15 months ago by lwanderson8c • 0

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597

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syntenet Bacteria synteny

updated 4 months ago by Fabricio Almeida-Silva ▴ 40 • written 6 months ago by kluongni • 0

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syntenet microsynteny blocks synteny

written 9 months ago by Alexandros • 0

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554

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Network syntenet Clustering coefficient

9 months ago Alexandros • 0

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273

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syntenet

updated 6 weeks ago by Fabricio Almeida-Silva ▴ 40 • written 3 months ago by Sujeevan • 0

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255

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syntenet doubletrouble

6 weeks ago hfyuan2016 • 0

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238

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syntenet

updated 6 weeks ago by Fabricio Almeida-Silva ▴ 40 • written 12 weeks ago by Sujeevan • 0

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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

Answer: Use of negative binomial model for exponential decay rate estimation using DESeq

Comment: Different Shrunk Log2FC according with reference

Reproducibility issue with scran together with lapply and BiocParallel

C: SGSeq: moving toward diffex from SGSeq analysis

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