Tutorials

• Tutorial: SOMA Objects
  • Experiment
  • DataFrame
  • Collection
  • DenseNDArray
  • SparseNDArray
• Tutorial: Reading SOMA Objects
  • Reading a DataFrame
  • Reading a SparseNDArray
• Tutorial: SOMA Experiment queries
• Tutorial: TileDB-SOMA append mode
• Tutorial: SOMA shapes
  • The shape feature
  • When and how to resize at the experiment level
  • How to upgrade older experiments
  • Advanced usage: dataframes with non-standard index columns
  • Advanced usage: using resize at the dataframe/array level using the SOMA API
• Spatial Tx: ingest 10x Visium sample data
  • Download sample data from 10x
  • Data access
  • Spatial components
  • Images
  • Spatial Dataframe
  • Using Coordinate Spaces and Transforms
• Tutorial: Scanpy + Dask-AnnData
  • Open experiment, initialize query
  • Initialize Dask
  • Convert query to Dask-backed anndata
  • Scanpy preprocessing
  • Scanpy HVG
  • Scanpy PCA
  • Subset cell types, plot