Bioconductor Estimatesizefactors

Showing : estimatesizefactors • reset

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660

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locfunc DESeq2 shorth estimateSizeFactors

15 months ago Hope ▴ 10

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1.2k

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deseq2 estimatesizefactors

updated 6.5 years ago by Ryan C. Thompson ★ 7.9k • written 6.5 years ago by owenchapman1 • 0

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deseq2 LRT geometric mean estimatesizefactors model.matrix

updated 6.6 years ago by Michael Love 43k • written 6.6 years ago by carol.brunel • 0

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6.9k

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deseq2 error R estimatesizefactors zero

updated 3.1 years ago by LW • 0 • written 7.6 years ago by abhishek.yedugondla • 0

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1.9k

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deseq2 estimatesizefactors

7.5 years ago Lauma R ▴ 10

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4.3k

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deseq2 estimatesizefactors

updated 8.5 years ago by Steve Lianoglou ★ 13k • written 8.5 years ago by Assa Yeroslaviz ★ 1.5k

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2.3k

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deseq2 tximport rsem estimatesizefactors

9.0 years ago Hugo Varet ▴ 80

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13k

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deseq2 estimatesizefactors

updated 9.4 years ago by Michael Love 43k • written 9.4 years ago by ssabri ▴ 20

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2.2k

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phyloseq deseq2 estimatesizefactors

updated 9.5 years ago by Michael Love 43k • written 9.5 years ago by brandilyn.peters • 0

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estimatesizefactors deseq2

updated 9.6 years ago by Michael Love 43k • written 9.6 years ago by Mehmet Ilyas Cosacak • 0

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deseq2 estimatesizefactors

updated 10.2 years ago by Michael Love 43k • written 10.2 years ago by umut.caglar ▴ 10

11 results • Page 1 of 1

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Comment: Check removeBatchEffect effectiveness by massimo • 0

Yes, I still get the warning, so there is confounding apparently. However, the resulting adjusted matrix is quite different than before and…

Answer: Limma trend with limpa by Gordon Smyth 52k

Dear Alejandro, Thanks for your interest. No, one does not set `trend=TRUE` when running eBayes() after dpcDE(). The variance trends are …

Comment: Check removeBatchEffect effectiveness by Gordon Smyth 52k

Both of your matrices, `design_batcheffects` and `design_timepoint`, span the intercept term, which will cause a warning about NA coefficie…

Comment: DiffBind - question on the use of filtered or unfiltered input data by sloperun3az • 0

Your essay was beneficial to me, and I found it to be very useful. Thank you for writing it. You give a wealth of knowledge that is not onl…

Comment: compute_fasta_digest does not match Salmon index hash by sloperun3az • 0

The people who are reading your work are not taken into consideration, even though you appear to have a solid understanding of the subject …

Votes

Comment: Check removeBatchEffect effectiveness

Answer: Check removeBatchEffect effectiveness

A: what should I do with many zero counts from Salmon quantification

Comment: parameters of filterByExpr

GAlignments Cigar to GRanges

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