single cell database utilities
Project description
Update Data Model
EGA
- Write a function (named by the
EGAID
) to preprocess meta table under theEGA
class inscDB/EGA.py
file - Enter the following CMD to update data mode
./bin/scDB [project] [workspace] EGA [path/to/delimited_maps] [EGAID]
CCG
Process previous project
- Write a function (named by the
cohortID
) to preprocess meta table under theCCG
class inscDB/CCF.py
file - Enter the following CMD to update data mode
./bin/scDB [project] [workspace] CCG [path/to/meta_table] [cohortID]
Update BCL file to the shared workspace [SingleCellStorage_VALab]
- Copy the BCL file to
gs://fc-48fd2ee8-f6eb-4d07-b271-e8304d29fb1b/Raw_BCL_Files
- Copy Manifest file to
gs://fc-48fd2ee8-f6eb-4d07-b271-e8304d29fb1b/Manifest_Files/[cohort_id]_Manifest.txt
- Manually generate a
[cohort_id].tsv
file - Enter the following CMD to update data mode
./bin/scDB nci-breardon-bi-org SingleCellStorage_VALab CCG meta/CCG/BCL/[cohort_id].tsv bclStorage
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