Annotation hackathon

[emdann]

TO DO

• [x] Add updated annotations to metadata/manual_annotations/
  • [x] Lymphoid
  • [x] Myeloid
  • [x] Erythroid
  • [x] Stromal
• [x] Update script to collapse annotation (start from here)
• [x] Fix conflicts between cells present in multiple splits (progenitors)
• [x] Save high level grouping to use in figures (see Pan_fetal_immune/metadata/manual_annotation/annotation_groups_HSC_IMMUNE_20210609.csv)
• [x] Save machine-readable list of marker genes for each label
• [x] Make dotplots of marker genes

[emdann]

• [x] Make sure the detail of the annotations is uniform across splits
• [x] Add annotation notebooks to the repo