Omni
BioAI
Sign in
Spatial Analysis (Visium)
Apply approved Visium QC thresholds and generate canonical per-sample AnnData (.h5ad) artifacts for downstream clustering and marker identification.
Run Spatial Analysis
workflow_runner output.json (OmniObject)
-- Select workflow output.json object --
Must be object_type=
spatial_workflow_output_json
.
Approved thresholds (OmniObject)
-- Select thresholds object --
Must be object_type=
spatial_thresholds
.
apply_to_samples (optional)
mode
per_sample
combined (future)
n_hvgs
Export per-sample .h5ad (recommended)
Run Spatial Analysis
Output:
out/per_sample/<sample_id>.h5ad
(AnnData) + QC summary JSON per sample. Registers
spatial_anndata
OmniObjects for downstream steps.