Skip to content

Commit

Permalink
Update README.md
Browse files Browse the repository at this point in the history
  • Loading branch information
jkobject authored Nov 13, 2024
1 parent 03ffa37 commit 0437843
Showing 1 changed file with 2 additions and 1 deletion.
3 changes: 2 additions & 1 deletion README.md
Original file line number Diff line number Diff line change
Expand Up @@ -10,14 +10,15 @@
[![Code style: black](https://img.shields.io/badge/code%20style-black-000000.svg)](https://github.com/psf/black)
[![DOI](https://img.shields.io/badge/DOI-10.1101%2F2024.07.29.605556-blue)](https://doi.org/10.1101/2024.07.29.605556)

<img src="./grnndata.png" width="300"/>

GRnnData works similarly to anndata. The goal was to use the .varm/.varp of anndata to store the GRN data associated with a dataset and have a formal way to work with GRNs.

GRnnData is a subclass of anndata.AnnData, it enforces only that a .varp exists for the anndata

GRnnData also contains multiple helper functions to work with GRNs in scRNAseq like compute_connectivities, get_centrality, compute_cluster, enrichment, metrics, etc. but also accessing the grn with .grn, .targets, .regulators,...

The package has been designed together with the [scPRINT paper](https://doi.org/10.1101/2024.07.29.605556) and [model](https://github.com/cantinilab/scPRINT), and the GRN benchmarking tool [BenGRN](https://github.com/jkobject/BenGRN)

## Install it from PyPI

```bash
Expand Down

0 comments on commit 0437843

Please sign in to comment.