Bioconductor DE analysis

Showing : DE analysis • reset

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2.4k

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NanoStringDiff NanoString nCounter DE analysis

updated 18 months ago by georgersmith • 0 • written 5.8 years ago by lim6432 ▴ 50

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2.6k

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RNAseq DESeq2 outlier counts DE analysis

updated 5.0 years ago by Kevin Blighe ★ 4.0k • written 5.0 years ago by DcL-A • 0

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1.2k

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DE analysis miR deseq2 mirplant

updated 7.6 years ago by Michael Love 43k • written 7.6 years ago by weissert • 0

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1.8k

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rnaseq de analysis gene filtering noiseq

updated 7.8 years ago by James W. MacDonald 68k • written 7.8 years ago by Mau ▴ 50

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2.9k

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edgeR DE analysis fold change cpm

updated 8.8 years ago by Ryan C. Thompson ★ 7.9k • written 8.8 years ago by Sara ▴ 20

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2.5k

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edgeR RNAseq DE analysis gene filtering

8.8 years ago Mau ▴ 50

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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…

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Comment: parameters of filterByExpr

GAlignments Cigar to GRanges

Answer: GAlignments Cigar to GRanges

parameters of filterByExpr

Answer: parameters of filterByExpr

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