Bioconductor Forum

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RNAseq123

updated 5 minutes ago by Gordon Smyth 50k • written 4 days ago by Lluís Revilla Sancho ▴ 730

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DESeq2 celda

updated 11 minutes ago by ATpoint ★ 4.0k • written 13 hours ago by JalapenoCornbread • 0

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142

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DESeq2

2 days ago • updated 2 hours ago winwater0928 • 0

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EnhancedVolcano

updated 10 hours ago by James W. MacDonald 65k • written 15 hours ago by pl23 • 0

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236

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DESeq2 RUVSeq RUVseq BatchEffect DES

updated 13 hours ago by James W. MacDonald 65k • written 20 hours ago by Alexandre • 0

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144

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GO.db goTools

updated 16 hours ago by James W. MacDonald 65k • written 2 days ago by bandconductor • 0

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DESeq2 PCAtools

updated 18 hours ago by JKim • 0 • written 1 day ago by Aaliya • 0

7 results • Page 1 of 1

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Comment: Deseq2. decontXcounts not integers. Useful alternative? by ATpoint ★ 4.0k

I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…

Answer: Improving the design matrices vignette in RNAseq123 by Gordon Smyth 50k

Thanks to Shian Su, we have confirmed that the problem in the design matrices vignette html is caused by a bug in knitr 1.44 (to do with sp…

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by winwater0928 • 0

Thank you for your comment! I'll review my code from top to bottom.

Comment: Math expression in shapeCustom legend in EnhancedVolcano by James W. MacDonald 65k

So basically you are using HTML markup to set your subscripts and whatnot, and then `element_markdown` does the rest.

Comment: Math expression in shapeCustom legend in EnhancedVolcano by James W. MacDonald 65k

Oh snap. Foiled again. Here it is with spaces & ge ; and & lt ;

Votes

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)

biomaRt error: database disk image is malformed

Comment: biomaRt : No lock file for BiocFileCache

Answer: Cross-species analysis - how to compute the mid parent value?

Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2

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Scholar to James W. MacDonald 65k

Supporter to JKim • 0