Analysis for 2019 submission "Integrated single cell analysis of blood and cerebrospinal fluid leukocytes in multiple sclerosis" Schafflick1, Xu, Hartlehnert1 et. al
Hello,
Thank you for providing your code and the .5ad file! I have converted this file into an h5 Seurat object in R using SeuratDisk and have successfully unpacked this integrated dataset. I have also been able to reproduce your figure 1b combined umap figure. I am now wanting to split the data into cases and tissues. I see in the object's metada an "MS" and "CSF" column with 1s and 2s. I am assuming these correspond to case or control and CSF vs PBMC. However, I am not able to find anywhere in your python code that notes how this is coded. Can you please advise?
Thank you,
Laura Ann Leaton
Hello, Thank you for providing your code and the .5ad file! I have converted this file into an h5 Seurat object in R using SeuratDisk and have successfully unpacked this integrated dataset. I have also been able to reproduce your figure 1b combined umap figure. I am now wanting to split the data into cases and tissues. I see in the object's metada an "MS" and "CSF" column with 1s and 2s. I am assuming these correspond to case or control and CSF vs PBMC. However, I am not able to find anywhere in your python code that notes how this is coded. Can you please advise? Thank you, Laura Ann Leaton