Biostar R

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210

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ggplot2 Transcriptomics Visualization R limma

11 days ago • updated 6 days ago mohammedtoufiq91 ▴ 10

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130

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R edgeR limma RNASeq Normalization

updated 5 days ago by Gordon Smyth 45k • written 5 days ago by mohammedtoufiq91 ▴ 10

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limma lmfit R DifferentialExpression

updated 5 days ago by ATpoint ★ 1.2k • written 5 days ago by Dimitris • 0

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R edgeR

updated 1 day ago by Gordon Smyth 45k • written 1 day ago by Mohamed • 0

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114

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RNA Combat sva R

10 days ago • updated 3 days ago takemoto • 0

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166

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limma Epigenetics STATISTICS R

6 days ago • updated 5 days ago nabiyogesh ▴ 10

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Comment: Italicise by Kevin Blighe 3.5k

Okay, I am guessing that the problem is that you need to update the version of *EnhancedVolcano* to the latest version. Can you try that? T…

Comment: Italicise by Pau • 0

They're the same: example of the vignette: "italic('VCAM1')" and result from my data: "italic('CARS1')" As I am running against time be…

Comment: Can Differential Isoform expression analysis can be performed using DESeq2 packa by priyanka.m • 0

Thank you for the suggestions. I will try to compare my results and accordingly interpret the two.

Answer: [sva] Error in density.default(x, adjust = adj) : 'x' contains missing values by wahaha • 0

I found the reason, because some gene expression levels are 0 in all samples. you can add these code to check the data: >exp_mean <- appl…

Answer: DESeq2 how to specify contrast to test difference of differences by Nicole • 0

The comment from @mikelove about specifying numeric contrasts answered my question. This code is not standalone, but I will leave it here i…

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Answer: DESeq2 how to specify contrast to test difference of differences

Comment: DESeq2 how to specify contrast to test difference of differences

Answer: Confused about the design matrix in edgeR: How to tell R to consider one level a

Answer: biomaRt error unable to fix: need help troubleshooting

Answer: edgeR : results from goana and kegga functions show opposite sig. p-value

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Scholar to Nicole • 0

Teacher to Michael Love 37k