v0.5.0

• New workflow: only_qc
  • It is now easier to run the pipeline until the pooling step.
  • This can be used to process different sets of samples in different times, then all the outputs from this workflow can be used together with after_qc mode.
• Improvements and changes in scripts:
  • It is now possible to run the pipeline without Cellbender output, STARsolo output is used only in this case.
  • Removing metadata columns in integration.py was reverted back
  • New RESUME scripts have been added
  • after_qc workflow can now use the samples in the sample list only rather than all the objects in the folder.
  • Reports folder is now named similar to the results folder.
  • Outputting plots in run_qc step now works as expected.
• Updates in README
  • The workflow diagram has been recreated.
  • The workflow modes have been described with a new figure.
  • Outputs from each step have been described in detail.
  • Text in some steps were revised.