Bioconductor Mergecutheight

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WGCNA mergeCutHeight

updated 5.4 years ago by Peter Langfelder ★ 2.8k • written 5.4 years ago by harelarik ▴ 60

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wgcna module mergecutheight coexpression

5.2 years ago tarun2 • 0

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Comment: DeSEQ 2 Error: some values in assay are negative by James W. MacDonald 63k

In order to back up your assertion that there are no negative values, you should provide evidence. For example ``` any(countData < 0) dds …

Answer: DeSEQ 2 Error: some values in assay are negative by Michael Love 40k

You don't need to remove 0's. What do you get with ``` any(countData == 0) ```

Comment: Interpret plot from DiffBind by Rory Stark ★ 4.9k

See above, you want the sites where `Fold > 0`.

Comment: Interpret plot from DiffBind by Rory Stark ★ 4.9k

That does seem like you have a very high number of open chromatin sites changing. How many are in the consensus matrix? You can see how ma…

Comment: Interpret plot from DiffBind by Rory Stark ★ 4.9k

I can see the confusion here as one color is being used in two different ways. The dark blue/purple color is used for the bars on the left…

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Answer: Interpret plot from DiffBind

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