Bioconductor Limma-voom

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limma limma-voom

updated 11 months ago by Gordon Smyth 53k • written 11 months ago by Ahdee ▴ 60

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1.8k

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variancePa variancePartition limma-voom dream

updated 2.7 years ago by Gordon Smyth 53k • written 2.7 years ago by Le • 0

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1.6k

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limma limma-voom StatisticalMethod

updated 2.8 years ago by Gordon Smyth 53k • written 2.8 years ago by jay ▴ 10

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2.2k

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limma limma-trend limma-voom

updated 21 months ago by floriandeckert ▴ 30 • written 3.0 years ago by hainct • 0

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1.1k

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limma-voom smooth-quantile-normalization quantro

3.3 years ago raf4 ▴ 30

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2.6k

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limma limma-voom

updated 2.6 years ago by blackdesgin • 0 • written 7.6 years ago by SPbeginner • 0

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1.9k

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limma limma-voom rnaseq voom

updated 4.1 years ago by Gordon Smyth 53k • written 4.1 years ago by taur.vil • 0

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deseq2 limma voom limma-voom rnaseq

updated 6.9 years ago by Gordon Smyth 53k • written 6.9 years ago by bharata1803 ▴ 60

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3.4k

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limma-voom duplicatecorrelation random effects

updated 7.0 years ago by Gordon Smyth 53k • written 7.0 years ago by tcalvo ▴ 100

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2.8k

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limma-voom deseq2 EdgeR

updated 7.0 years ago by Steve Lianoglou ★ 13k • written 7.0 years ago by Raymond ▴ 20

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3.5k

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rna-seq time series patient limma-voom

updated 7.1 years ago by Aaron Lun ★ 29k • written 7.1 years ago by aec ▴ 90

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limma limma-voom limma design matrix confounders

updated 7.4 years ago by Aaron Lun ★ 29k • written 7.4 years ago by S.Bamopoulos ▴ 10

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2.7k

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limma limma-voom

updated 7.6 years ago by Gordon Smyth 53k • written 7.6 years ago by Peter Langfelder ★ 3.0k

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2.9k

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limma-voom design matrix limma time-course limma design matrix limma

7.7 years ago • updated 7.6 years ago SPbeginner • 0

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1.7k

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quantile normalization limma-voom

updated 7.7 years ago by Gordon Smyth 53k • written 7.7 years ago by bilcodygm • 0

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5.2k

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voom limma-voom voomwithqualityweights rna-seq

updated 7.7 years ago by Matthew Ritchie ▴ 1000 • written 7.7 years ago by anne.biton ▴ 20

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1.7k

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limma limma-voom goseq

updated 7.8 years ago by Gordon Smyth 53k • written 7.8 years ago by joelrosa • 0

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limma-voom rnaseq normalization

7.8 years ago bilcodygm • 0

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1.6k

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rnaseq edger limma-voom

updated 7.8 years ago by Michael Love 43k • written 7.8 years ago by bilcodygm • 0

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1.8k

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limma edger voom voomWithQualityWeights limma-voom

updated 7.9 years ago by Gordon Smyth 53k • written 7.9 years ago by Guido Hooiveld ★ 4.1k

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2.4k

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limma-voom voom limma rna-seq

updated 8.0 years ago by Aaron Lun ★ 29k • written 8.0 years ago by vd4mmind • 0

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1.9k

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salmon tximport limma-voom

updated 8.1 years ago by Michael Love 43k • written 8.1 years ago by Sandip Darji ▴ 30

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2.9k

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normalization sva limma-voom

updated 8.3 years ago by Gordon Smyth 53k • written 8.3 years ago by aec ▴ 90

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3.2k

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limma-voom sva duplicatecorrelation

updated 8.3 years ago by sina.nassiri ▴ 130 • written 8.3 years ago by aec ▴ 90

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5.8k

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voom limma-voom tximport edger

updated 8.6 years ago by Ryan C. Thompson ★ 7.9k • written 8.6 years ago by johnmcma ▴ 10

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4.1k

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limma limma-voom limma paired analysis limma contrast matrix

updated 8.6 years ago by Aaron Lun ★ 29k • written 8.6 years ago by gregory.l.stone ▴ 10

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2.4k

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rnaseq limma limma-voom Tutorial

updated 8.6 years ago by Aaron Lun ★ 29k • written 8.6 years ago by icxa0409 • 0

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1.6k

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edger limma-voom voom

updated 8.7 years ago by Aaron Lun ★ 29k • written 8.7 years ago by gregory.l.stone ▴ 10

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2.2k

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limma limma-voom

updated 8.7 years ago by Aaron Lun ★ 29k • written 8.7 years ago by gregory.l.stone ▴ 10

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2.4k

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limma limma design matrix limma contrast matrix limma paired analysis limma-voom

updated 8.7 years ago by Gordon Smyth 53k • written 8.7 years ago by gregory.l.stone ▴ 10

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1.8k

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limma-voom rnaseq differential gene expression

9.1 years ago Javier Gutierrez-Achury • 0

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3.5k

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edger limma-voom paired samples

9.1 years ago aec ▴ 90

32 results • Page 1 of 1

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Comment: "Watched Tags" are being erased rather than updated by shepherl 4.2k

I can reproduce this and have opened an issue on the code base https://github.com/Bioconductor/support.bioconductor.org/issues/112

Comment: "Watched Tags" are being erased rather than updated by shepherl 4.2k

we can investigate this issue. thank you for bringing it to our attention

Comment: deseq2 filter the low counts by Michael Love 43k

> But within each comparison (contrast), if I trace some DEGs back to the original salmon merged gene counts (or even to normalised counts)…

Comment: deseq2 filter the low counts by empty_mt • 0

Thank you for you suggestion to look at the pre-filtering section in the DESeq2 vignettes - am I missing something? I have 6 treatments, …

Comment: deseq2 filter the low counts by Michael Love 43k

Have you seen this part: https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#pre-filtering

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Bioconductor 3.22 Released!

Comment: "Watched Tags" are being erased rather than updated

Comment: deseq2 filter the low counts

Answer: DESeq2 interactions

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