Step 5: Feature Extraction and Phasing

Code files

  • SpaceTracer/steps/step5_spatial_feature.py
  • SpaceTracer/steps/step5_mappability_feature.py
  • SpaceTracer/steps/step5_read_feature.py
  • SpaceTracer/steps/step5_RNA_level_feature.py
  • SpaceTracer/steps/step5_phasing.py

Runtime step names

  • spatial_feature
  • mappability_feature
  • read_feature
  • RNA_feature
  • phasing

What this step does

Step 5 includes multiple parallel/related feature modules:

  • spatial_feature: spatial-neighborhood evidence
  • mappability_feature: mappability/confounder evidence
  • read_feature: read-level quality/bias evidence
  • RNA_feature: RNA-level context evidence
  • phasing: phasing refinement before final merge/filter

Detailed reference pages