Bioconductor Time-course

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limma multiple time points time-course differential expression

updated 6.6 years ago by Aaron Lun ★ 28k • written 6.6 years ago by Jake • 0

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2.0k

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deseq2 time-course

updated 5.8 years ago by Michael Love 41k • written 5.8 years ago by rbenel ▴ 40

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2.0k

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rnaseq deseq2 time-course

updated 6.8 years ago by Gavin Kelly ▴ 680 • written 6.8 years ago by inzirio ▴ 10

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1.4k

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deseq2 Time-course

updated 5.0 years ago by Michael Love 41k • written 5.0 years ago by h.valipour.k • 0

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799

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deseq2 time-serie time-course fold-change

updated 4.0 years ago by swbarnes2 ★ 1.3k • written 4.0 years ago by Victor Chano • 0

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576

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microarray normalization tscR time-course

updated 3.7 years ago by Kevin Blighe ★ 3.9k • written 3.7 years ago by keremwai • 0

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634

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deseq2 design time-course

updated 4.8 years ago by Michael Love 41k • written 4.8 years ago by Victor Chano • 0

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932

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masigpro covariates limma differential expression time-course

6.6 years ago veersingh.marwah • 0

8 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

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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