scdataloader

Awesome single cell dataloader created by @jkobject

This data loader is designed to be used with:

• lamindb

and:

• scanpy
• anndata

It allows you to:

1. load thousands of datasets containing millions of cells in a few seconds.
2. preprocess the data per dataset and download it locally (normalization, filtering, etc.)
3. create a more complex single cell dataset
4. extend it to your need

More

I needed to create this Data Loader for my PhD project. I am using it to load & preprocess thousands of datasets containing millions of cells in a few seconds. I believed that individuals employing AI for single-cell RNA sequencing and other sequencing datasets would eagerly utilize and desire such a tool, which presently does not exist.

Install it from PyPI

pip install scdataloader

Usage

see the notebooks in docs:

1. load a dataset
2. create a dataset

Development

Read the CONTRIBUTING.md file.