Bioconductor GTEx

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DESeq2 recount GTEx TCGA recount3

updated 2.5 years ago by ATpoint ★ 5.0k • written 2.5 years ago by David ▴ 20

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3.3k

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recount3 TCGA GTEx DESeq2

3.4 years ago David ▴ 20

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1.9k

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DESeq2 GTEx

4.7 years ago Bine ▴ 50

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4.1k

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recount gtex

updated 7.0 years ago by Leonardo Collado Torres ★ 1.1k • written 7.0 years ago by abe • 0

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1.5k

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limma voom gtex

7.6 years ago mico • 0

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2.4k

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rnaseq deseq2 gtex

updated 7.9 years ago by Michael Love 43k • written 7.9 years ago by vikram • 0

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4.8k

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public data TCGA GTEx Tutorial

8.2 years ago shepherl 4.2k

7 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

Answer: Important: Bioconductor Release 3.22 Delayed

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