Skip to content

Latest commit

 

History

History
28 lines (17 loc) · 966 Bytes

v1_0.md

File metadata and controls

28 lines (17 loc) · 966 Bytes

Overview

We expect an umap HDF5 group at the root of the file, containing the UMAP parameters and results. The umap group itself contains the parameters and results subgroups.

Definitions:

  • num_cells: number of cells remaining after QC filtering.

Parameters

parameters should contain:

  • num_epochs: a scalar integer containing the number of epochs to perform.
  • num_neighbors: a scalar integer containing the number of nearest neighbors to use when constructing the sets.
  • min_dist: a scalar float specifying the minimum distance between points.
  • animate: a scalar integer to be interpreted as a boolean, indicating whether an animation should be performed.

Results

results should contain:

  • x: a float dataset of length equal to num_cells, containing the x-coordinates for each cell.
  • y: a float dataset of length equal to num_cells, containing the y-coordinates for each cell.

History

Added in version 1.0.