Closed p-gueguen closed 1 year ago
Hey Paul,
I am working on making a single integrated object which will include the cohort data. For now, each of the sequencing runs are summarized here. Hope that helps.
Nick
Thank you for the quick answer, Nick! Looking forward to the updates on this. I had missed the excel file indeed. Is there any way to match these metadata to the samples of individual Seurat objects (ie. BCT1.1)?
Thanks!
Paul
Hey Paul,
All the seurat objects/anndata .h5 objects should follow the naming convention (such as BCT1.1). If you load the seurat object - the orig.ident variable is also using the naming convention. A summary of the sample id/naming convention is actually better described on the dev branch.
Nick
Thanks a lot Nick, that's very clear now. Have a great day.
Paul
Hello,
Thanks a lot for the nice repo! I was wondering if you had a version of the v0.4 datasets with annotated Type, Tissue, and the Cohort (with the GSE identifier for instance) in the metadata, like what you had for the v0.1 pipeline.
I can retrieve most of it by your sample name nomenclature, but I think I will still miss the cohort identifier.
Thanks a lot for your help, Paul