Bioconductor CyTOF

Showing : CyTOF • reset

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898

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cytofWorkflow cytof diffcyt

4.0 years ago achaillon • 0

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1.7k

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Cytofast FlowSom CyTOF fcs files

4.3 years ago domenico.somma • 0

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1.3k

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deseq2 mass cytometry CyTOF

updated 4.3 years ago by Michael Love 43k • written 4.3 years ago by mikhael.manurung ▴ 280

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782

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batch effect cytof

4.8 years ago mikhael.manurung ▴ 280

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2.0k

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Cydar CyTOF normalization

updated 5.3 years ago by Aaron Lun ★ 28k • written 5.3 years ago by ghogg • 0

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1.1k

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cydar CyTOF

updated 5.9 years ago by Aaron Lun ★ 28k • written 5.9 years ago by mikhael.manurung ▴ 280

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1.5k

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cytofkit cytof write.csv output

updated 8.2 years ago by chen_hao ▴ 30 • written 8.2 years ago by cjackson13 • 0

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3.0k

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flowCore flowcore CyToF Rtsne

updated 9.4 years ago by Jiang, Mike ★ 1.3k • written 9.4 years ago by clevy ▴ 10

8 results • Page 1 of 1

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Comment: Why did PCA plots look exactly the same after adjusting for batch covariate in D by James W. MacDonald 67k

How you analyze your data is up to you. But do note that Subset * Conditions implies that you want to find genes that respond to stimulus d…

Comment: MBDseq analysis using qsea package by kf • 0

Hi Matthias, Happy new year! I wondered if it is possible to retrieve normalized value from each samples? makeTable seems only return beta…

Comment: Why did PCA plots look exactly the same after adjusting for batch covariate in D by Quang • 0

Hi, James. I forgot to mention, but yes, I did run `DESeq2::DESeq()`. So, I ran `DESeq2::DESeqDataSetFromHTSeqCount`, then `DESeq2::DESeq()…

Answer: Why did PCA plots look exactly the same after adjusting for batch covariate in D by ATpoint ★ 4.6k

It's an FAQ in the vignette: https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#why-after-vst-are-there-s…

Comment: Deseq2, enrichGO and ensembl ID by James W. MacDonald 67k

I am not sure I understand. You say that a unique Ensembl ID maps to multiple gene symbols. That doesn't mean you have two genes (it's just…

Votes

A: Trajectory analysis for single cell sequencing

Answer: Annotation with org.Hs.eg.db Genome Build 38

Answer: Considerations behind the choice of RNAseq Differential Expression Analysis Tool

A: goana limma- extract list of DE genes and genes in the enriched GO terms?

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