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Heatmap RNA-seqanalysis heatmaps DESeq2

updated 6 months ago by Basti ▴ 780 • written 6 months ago by langziv • 0

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updated 7 months ago by Gordon Smyth 50k • written 7 months ago by ulin.1 • 0

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gpart heat heatmaps

updated 7 months ago by James W. MacDonald 66k • written 7 months ago by Benjamin • 0

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heatmaps

updated 11 months ago by sayite3688 • 0 • written 11 months ago by dania.khalid • 0

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Comment: Slightly different count plots from R and spreadsheet by boczniak767 ▴ 720

Thank you, but now I have six black and six red boxes (3 black, 3 red, 3 black, 3 red) whereas for each timepoint I have two experimental v…

Comment: Slightly different count plots from R and spreadsheet by Michael Love 42k

I added `col` so you can see the different groups. I just want you to be able to see the raw data so you can infer which plot is correct.

Comment: Slightly different count plots from R and spreadsheet by boczniak767 ▴ 720

Thank you, the code you provided gives boxplots for each data-point for pooled samples?

Comment: Running ENmix with mouse methylation manifest: readidat error - Error in readman by xuz • 0

Could you try the following code and see whether you have any errors mf="MouseMethylation-12v1-0_A2.csv" manifest=readmanifest(mf) What …

Answer: Slightly different count plots from R and spreadsheet by Michael Love 42k

I'm gonna guess something went wrong in libreoffice. Try also ``` with(prb1, plot(timepoint, count, col=as.integer(ln))) ```

Votes

Including squared covariates to account for non-linear dependencies in differential gene expression analysis

DESeq2 DE gene expression of scRNA-seq pseudobulk

Answer: Multiple factor DSEq2 result generates weird volcano plot

DESeq2 for single cell pseudobulk processing

Simultaneously adding two different covariates in the model gives error in DESeq2.

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Centurion to boczniak767 ▴ 720