Project / Analysis Stucture
We had a small discussion on how the final analysis structure. Currently as the config is setup we save the pipeline output in the notebook directory.
A nicer way would be to have the results outside of the notebook directory.
Currently:
- rna-notebooks
- 01...
- 02...
- 03...
- pipeline_output
- adatas
- figures
- ...
- scrnapreprocssing
- raw
Updated version:
- raw
- preprocessing
- RNA-Analysis (or ATAC-Analysis)
- notebooks
- adatas
- figures
- logs
- tables
One question remains on how to handle multiple runs. Do we create individual run folders if there are multiple runs or always?
If multiple runs:
- raw
- preprocessing
- RNA-Analysis (or ATAC-Analysis)
- run1
- notebooks
- adatas
- figures
- logs
- tables
- run2
- notebooks
- adatas
- figures
- logs
- tables
- run1