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mbhall88 / head_to_head_pipeline

Snakemake pipelines to run the analysis for the Illumina vs. Nanopore comparison.
GNU General Public License v3.0
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Submit data to the ENA #83

Closed mbhall88 closed 2 years ago

mbhall88 commented 2 years ago

Study is registered with accession PRJEB49093

mbhall88 commented 2 years ago

@iqbal-lab I am working on registering the samples for the study and the only piece of mandatory metadata I can't infer for the Birmingham data is collection date. Are you able to get this?

mbhall88 commented 2 years ago

Another question regarding the metadata. "Strain" is not mandatory, but recommened, would this be the best place to put lineage information?

iqbal-lab commented 2 years ago

Apologies, I can ask Tim peto about collection date. I am belatedly worrying if the Birmingham data has been independently submitted.

Re strain, will ask. Have never seen lineage in there

mbhall88 commented 2 years ago

Apologies, I can ask Tim peto about collection date. I am belatedly worrying if the Birmingham data has been independently submitted.

Re strain, will ask. Have never seen lineage in there

Yeah, if they have been uploaded already (I assume only the Illumina will have been) I will need study and/or sample accessions (prefer Sample accessions so I don't have to scour the study for the samples I need). I am assuming the Nanopore data won't have been uploaded so I will still need the collection date for those - although I can steal that info from the Illumina ENA entries if they have already been uploaded.