Maria Doyle

Just to follow up here, don't think this issue is a high priority (for workshop anyway) as may not have time for any pathway analyses, but if needed we could...

Well I think we should have a tidybulk pathway/gene set analysis section at some point for a workshop. For the moment I just put some info in the supplementary here...

For me at the moment it's not a very high priority but I'd be happy to write a blog post if you want to focus on improving this aspect. Or...

>Since tidy* packages were converted to feature vocabulary, at some point we should adapt tidybulk too. @mblue9 concerns? Nope no concerns, sounds good. Some people consider transcripts==isoforms so using feature...

>I think subset_transcripts and subset_samples would be more clear and in line with tidyverse. @mblue9 concerns? Nope no concerns just wondering what you mean by it would be more in...

>For example, the filter function from dplyr mention the word subset https://dplyr.tidyverse.org/reference/filter.html >Plus subset is more comprehensible by the general audience than pivot, which is a quite abstract term. This...

>@mblue9, FYI at the Monash talk I received very good feedback about get_bibliography. I was suggested to include what methods/functions are related to each bib citation, for giving the opportunity...

This would be SO useful imo! I would love to have this option right now for filtering out mitochondrial reads.

I'm definitely in too. Thanks for starting this @pvanheus!

Choosing to run tests by number would be great! At the moment I work around it by copy/pasting out all the tests, adding in the new test (or tests I...