Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Add get_cell_counts to results utils #67

Merged
merged 6 commits into from
Jun 23, 2023
Merged

Add get_cell_counts to results utils #67

merged 6 commits into from
Jun 23, 2023

Conversation

elaubsch
Copy link
Member

This PR adds the function get_cell_counts to results_utils. This utility function converts the Polaris output format to a gene expression per cell table for compatibility with downstream analysis packages like scanpy and Seurat. Unit tests for this function have been added.

This PR also adds an example notebook to demonstrate how to use get_cell_counts to generate an input for scanpy.

@elaubsch elaubsch added the enhancement New feature or request label Jun 23, 2023
@elaubsch elaubsch merged commit 401b5f0 into master Jun 23, 2023
@elaubsch elaubsch deleted the mly/anndata branch June 23, 2023 18:09
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
enhancement New feature or request
Projects
None yet
Development

Successfully merging this pull request may close these issues.

1 participant