Bioconductor Sizefactors

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4.3k

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normalization deseq2 sizefactors

updated 4.9 years ago by Michael Love 43k • written 4.9 years ago by mankadeep2 ▴ 40

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2.7k

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deseq2 Tximport Sizefactors normalizationfactors spike-in

updated 4.7 years ago by Michael Love 43k • written 4.7 years ago by Hina Bandukwala • 0

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3.1k

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deseq2 betaPrior=FALSE sizeFactors

updated 9.7 years ago by Michael Love 43k • written 9.7 years ago by elenigeorgopoulou86 ▴ 10

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2.5k

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edger estimatedisp scran sizefactors

updated 8.7 years ago by Aaron Lun ★ 28k • written 8.7 years ago by mnaymik ▴ 10

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1.9k

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scrnaseq scrn sizefactors

7.6 years ago sfpacman • 0

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1.8k

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deseq2 sizeFactors

updated 7.3 years ago by Michael Love 43k • written 9.0 years ago by katzman ▴ 10

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2.8k

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tximport DESeq2 normalizationfactors sizefactors

updated 4.0 years ago by Michael Love 43k • written 4.0 years ago by svenbioinf • 0

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1.3k

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deseq2 normalization sizefactors

updated 7.1 years ago by Michael Love 43k • written 7.1 years ago by René ▴ 30

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1.9k

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deseq2 sizefactors pca normalization library size factor

updated 6.5 years ago by Michael Love 43k • written 6.5 years ago by ipso • 0

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Comment: Complex contrasts for between and within subject comparisons by wuwenhui2 • 0

@gordonsmyth Dear Dr. Smyth, in this design, I am interested to extract genes that have different expression profile at any of the time poi…

Comment: edgeR design between and within subjects by wuwenhui2 • 0

@luna Hi Aaron, Your explanation is very helpful. If having three time points instead of three cell types measured for each patient, usin…

Comment: Issue when attempting to use output from DECIPHER IDtaxa (pr2 V5) with dada2/phy by Daniel • 0

Two things: - PR2 version 5.0 and above have 9 levels and not 8 (up to version 4.14). So the code should be: > ranks.pr2 <- c("domain",…

Comment: Removing UTR from GTF for gene quantification by Michael Love 43k

Yes, we need to discourage tagging software packages arbitrarily on Bioconductor support site. This sends emails to the package maintainers…

Comment: Using tximport for kallisto aligned TOIL data by Nicholas • 0

Great, thanks. I have the transcriptome version and the corresponding GTF file for the ENSEMBL transcriptome version. Is there a way to do …

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Comment: Identifying potentially associated gene set to drug response using GSVA

Answer: Limma - Complex 2-way multi-level contrast with paired samples

Comment: Can't post a question?

Answer: Limma - Complex 2-way multi-level contrast with paired samples

Answer: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks

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