conda install python==3.10
pip install cellxgene_census
pip install joblib
- output:
tissue_list.tsv
- output:
00data/<tissue>.obs_id.tsv
- output:
00data/<tissue>.var.tsv
This script lists the target files to be downloaded in the above files.
- output:
01data/<tissue>-<start>-<end>.jbl
This script performs the download. The download is divided into N samples and saved. This makes it easier to perform parallel processing and allows you to resume from where you left off if the download is interrupted.
- output:
02data/<tissue>-<start>-<end>.h5ac
All downloaded files are converted to standard scanpy files. This is not done simultaneously with the download to prevent conversion errors from stopping the download.