James A. Fellows Yates
James A. Fellows Yates
This might be a good Hackathon task thinking about it (just moving stuff around), but we would need to coordinate with @mashehu as will need to update how the website...
I don't think it's just the discoverability that would benefit from the new structure that @edmundmiller but for creation and maintenance, which the website would not help. Alongside the examples...
Edit: oh you did that already 🤣
@nf-core-bot fix linting
Next steps (as it's been a while since I worked on this): - [ ] Run `dev` vs `bowtie2fixes` - [x] `nextflow run ../main.nf -profile test,docker --outdir ./results-bowtie2fixes` - [x]...
Without looking at the contents of the PR, the rules themselves conceptually all make sense to me as summarised on slack https://nfcore.slack.com/archives/C04QR0T3G3H/p1765382786144209 👍
This indeed would be nice! But we would need a tool packaged on bioconda to add to the pipeline
Just to also follow up with some technical issues: While very interested in seeing if `strobealign` can be adapted to work with aDNA [^1], even if the approach is working...
Nice! Out of curiosity, where did you get shrimp from? I've honestly never heard of it, let alone people using it for aDNA. To my knowledge 95% of people use...
> I was reading Joshua Rubin's preprint SAFARI: Pangenome Alignment of Ancient DNA Using Purine/Pyrimidine Encodings and it mentioned SHRiMP "SHRiMP is quite a sensitive alignment tool for aDNA samples...