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Can log2cpm be used for proteomics data normalization?
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normalization across different species for DESeq2 analysis
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Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(paste("networks", net.suid, "tables", tbl, sep = "/"), : object 're…
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1,000 results • Page 1 of 20
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Comment: How to approach time course RNAseq data? Seeing 80% DE genes in timepoint groups by Gordon Smyth 50k
The NG dispersion is almost zero for your data, meaning that there is almost no biological variation between the replicates. There are also…
Comment: Can I trust the differential expression analysis when the two groups overlap on by BioinfGuru ▴ 30
No worries, wish I could be more help. Plotly provide a [3-D plot][1] function that's pretty simple (the two you did are still 2-D plots, t…
Comment: Can I trust the differential expression analysis when the two groups overlap on by Michael Love 42k
If you manually compute PCA on VST data, what are the top 5 genes contributing to PC1? https://github.com/thelovelab/DESeq2/blob/devel/R/p…
Comment: Can I trust the differential expression analysis when the two groups overlap on by Eric Katagirya • 0
I created a DESeqDataSet object using DESeqDataSetFromMatrix function. I don't anticipate any mismatching or mixup of sampleIDs.
Answer: Assymetric MA plot with no overall trend by Michael Love 42k
> so many upregulated genes vs. downregulated, which I think is worrying Take a look at the plotCounts for a couple of the up-regulated …
Votes
Answer: Can log2cpm be used for proteomics data normalization?
Ensembl 112 has been released.
A: Diffbind results - non uniform width
A: Different logFC (log2foldchange) values for genes from limma-voom and other too
Answer: Error EPICv2 ChAMP
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