Bioconductor CyTOF

Showing : CyTOF • reset

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708

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cytofWorkflow cytof diffcyt

3.3 years ago achaillon • 0

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1.4k

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Cytofast FlowSom CyTOF fcs files

3.5 years ago domenico.somma • 0

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1.0k

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deseq2 mass cytometry CyTOF

updated 3.6 years ago by Michael Love 41k • written 3.6 years ago by mikhael.manurung ▴ 270

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622

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batch effect cytof

4.1 years ago mikhael.manurung ▴ 270

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1.6k

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Cydar CyTOF normalization

updated 4.6 years ago by Aaron Lun ★ 28k • written 4.6 years ago by ghogg • 0

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910

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cydar CyTOF

updated 5.2 years ago by Aaron Lun ★ 28k • written 5.2 years ago by mikhael.manurung ▴ 270

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1.3k

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cytofkit cytof write.csv output

updated 7.5 years ago by chen_hao ▴ 30 • written 7.5 years ago by cjackson13 • 0

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2.7k

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flowCore flowcore CyToF Rtsne

updated 8.7 years ago by Jiang, Mike ★ 1.3k • written 8.7 years ago by clevy ▴ 10

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 -…

Votes

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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