gevro

Hi, Just checking again if you can help with this issue? Thanks!

From what I can find in your code, it looks like the error is happening here: ``` .makewide

Sorry, correction: the .filtered.Aligned.GeneTagged.UBcorrected.sorted.bam file DOES have GE tags. So I'm not sure why this bug is happening. The GE tag should be retrieved and therefore the GE objects should...

R 4.2.2 I saw in another issue on here that R 3.6 fixes this? Is that correct? I tried '-c' option but that gives even more errors. Conda is not...

But it would be great to understand why this 'GE' error is happening in the first place. That would fix the issue.

Sorry one more idea: is it possible to run without '-c' and then rerun with '-c' and it will continue from the point that the initial run failed at? That...

It looks like the conda environment of zUMIs does not have R installed. So a docker where zUMIs is cloned into does not have R. I'd suggest putting R in...

Thanks. I think the issue was #332 . I removed zUMIs-env and now it is working. Now I'll run the pipeline again from docker and hopefully it works.

I wasn't able to figure this out, sorry.

Does the gene counting / expression analysis take into account UMIs I assume? i.e., it only counts each molecule once, even if > 1 read per UMI?