Bioconductor AUCell

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AUCell

updated 7 months ago by ATpoint ★ 2.8k • written 7 months ago by Lucy ▴ 60

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RcisTarget aucell SCENIC

updated 4.9 years ago by Martin Morgan 25k • written 4.9 years ago by jka8119 ▴ 10

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AUCell SCENIC

updated 5.0 years ago by sara.aibar ▴ 10 • written 5.0 years ago by Xingyu • 0

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Comment: Visualization of negative log CPM values by ATpoint ★ 2.8k

Applies to both.

Comment: Visualization of negative log CPM values by Sabiha ▴ 10

@atpoint OK, are you referring to the `log2(cpm+1)` or `log2(tpm+1)`

Comment: Visualization of negative log CPM values by Sabiha ▴ 10

@gordonsmyth noted. Related to the graphs above, the table below is the output from `limma`, and compound B has 2 statistically significant…

Comment: Visualization of negative log CPM values by Gordon Smyth 47k

> negative scale might perhaps indicate gene is too low to be really expressed. Yes, negative logCPMs do mean that the gene is expressed a…

Comment: Visualization of negative log CPM values by ATpoint ★ 2.8k

You can visualize whatever is appropriate for your story. If negative logCPMs are a problem (unintuitive I agree) then for visualization si…

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Comment: Visualization of negative log CPM values

Any efficient workaround to identify highly variable genes in Affymetrix microarray expression data?

Filtering low intensity probes in microarray data

Comment: Visualization of negative log CPM values

Adjusting for baseline when having longitudinal data, mixed model and no treatment

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