Harshil Patel
Harshil Patel
> Is it possible to somehow detect that an ID comes from ArrayExpress? I haven't looked properly but it would be neat if we could do this for any `ERR*`...
Indeed 👍 Looks a bit primitive in terms of development though? Maybe worth having another look at some point in the near future though.
Hi @dbrami ! Hope you are well! Yes, I think we should definintely look into adding this feature in the next release. Not entirely sure where and if we can...
Requested by @dpryan79 here https://github.com/lbcb-sci/graphmap2/issues/6
Except we aren't using `conda` because `guppy` isn't available there and could be problematic adding the `gpu` version :sweat_smile: .Using a mix of containers on DockerHub and BioContainers to overcome...
Hmm...good question :+1: Would have to ask Nanopore. In theory, it should support both `gpu` and `cpu` out of the box but in practice I couldn't use the `cpu` container...
Docker containers we are currently using in the pipeline: GPU Docker container: https://hub.docker.com/r/nanozoo/guppy_gpu/dockerfile CPU Docker container: https://hub.docker.com/r/genomicpariscentre/guppy/dockerfile
Thanks @dpryan79 . That would be amazing! I'm actually supposed to be on paternity leave. Apparently 🤪
Thanks @dpryan79. So basically it can't be added to BioConda (unless the license is changed or we get explicit approval). Not sure what to say about the people hosting the...
Hi @tetedange13 ! Thank you for using the pipeline and for your comments! > The Bash script below is basically what was done to each ARTIC V4 iVar trimmed BAM...