Bioconductor Interaction model

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906

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edger design model interaction model rnaseq

updated 6.4 years ago by James W. MacDonald 68k • written 6.4 years ago by cody0071 • 0

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1.1k

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deseq2 interaction model differential expression

updated 7.1 years ago by Michael Love 43k • written 7.1 years ago by aec ▴ 90

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11k

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deseq2 experimental design interaction model

updated 7.8 years ago by Michael Love 43k • written 7.8 years ago by ljcohen ▴ 30

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2.2k

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deseq2 interaction model nested design

8.2 years ago glocke01 ▴ 10

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2.1k

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deseq2 interaction model multiple factor design multifactorial design

8.2 years ago jhutchin • 0

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1.8k

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limma interaction model

updated 8.9 years ago by Gordon Smyth 52k • written 8.9 years ago by PJ • 0

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4.7k

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limma microarray interaction model multiple factor design makeContrasts

updated 9.2 years ago by Aaron Lun ★ 28k • written 9.2 years ago by svlachavas ▴ 840

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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 …

Comment: parameters of filterByExpr by Paul Harrison ▴ 110

It might be worth trying limma-voom (or limma-trend) instead of a GLM based method. In our experience these are less prone to this problem.…

Comment: limma::voom vs edgeR::voomLmFit - when to use? by Gordon Smyth 52k

voomLmFit() is in edgeR instead of limma because it needs to call edgeR::glmFit() internally to determine which of the zero observations al…

Comment: limma::voom vs edgeR::voomLmFit - when to use? by Geoff • 0

Just wondering--why was this function put into `edgeR` rather than `limma`? Maybe a bit technical, but it is a little confusing from an out…

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

Awards • All

Scholar to James W. MacDonald 68k