Biostar Volcano-plot

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volcano-plot EnhancedVolcano

updated 21 months ago by Kevin Blighe 3.7k • written 22 months ago by Assa Yeroslaviz ★ 1.5k

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Comment: Which input file is used for DGEList in EgdeR? by mohammedtoufiq91 ▴ 10

Thank you @gordonsmyth My collaborator asked me to test this pipeline with `egdeR` package. We are interested at gene level analysis only…

Answer: Why in Bioconductor community people rarely upvote questions? by Gordon Smyth 47k

I think it is a good idea to start a discussion with correct information. Looking back through Bioconductor Support records, it is not at a…

Comment: How to identify top most variable genes from log2 normalized data? by Gordon Smyth 47k

Your code doesn't look right to me. I think you're using order() where sort() would be more appropriate. To order your cpm matrix by row v…

Comment: How to load fasta file with openPrimeR? by Santiago Edilberto • 0

> library(openPrimeR) There are missing/non-functioning external tools. To use the full potential of openPrimeR, please mak…

Answer: Which input file is used for DGEList in EgdeR? by Gordon Smyth 47k

I use and recommend featureCounts. Despite all that has been written on this topic, I still think that direct gene counting is faster and m…

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Answer: Identifying DEGs using lfcshrink()

Answer: Is this DESeq2 interactions design correct?

Comment: STRINGdb string_db$map error

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