2 votes

Error while running computeMatrix command in Deeptools

It worked, I installed a the newer version of deeptools, from GitHub: https://github.com/deeptools/deepTools
2 votes

What is the required input peak file format for IDR (Irreproducible Discovery Rate)

As mentioned in the IDR readme on usage, there are examples in the IDR github repository here. Here's one of them: ...
gringer's user avatar
  • 14k
1 vote
Accepted

How do you extract the full list of files in a GEO archive?

Unlikely that you will be able to get the original submission spreadsheet, but you can use Geofetch
Sam's user avatar
  • 149
1 vote

I am trying to find correlation between two ChIP-seq datasets but the Pearson and Spearman test results do not correspond with the peak overlap

Correlations like this between ChIP-seq datasets is common. If you're calculating the correlation between BAM files across the entire genome, those are largely going to be the same (hence the need for ...
James Hawley's user avatar
  • 1,384

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