clara-parabricks/rapids-single-cell-examples: v2021.03.0

This release includes the following five example notebooks, covering single-cell RNA-seq and single-cell ATAC-seq analysis with RAPIDS.

Example 1: Single-cell RNA-seq of 70,000 Human Lung Cells Example 2: Single-cell RNA-seq of 1 Million Mouse Brain Cells Example 3: GPU-based Interactive Visualization of 70,000 Human Lung Cells Example 4: Droplet Single-cell ATAC-seq of 60K Bone Marrow Cells Example 5: Visualizing Chromatin Accessibility in 5,000 PBMCs with RAPIDS and AtacWorks

The release includes many functions, which are demonstrated in the notebooks, to enable easy adaptation of RAPIDS for single-cell analysis. rapids_scanpy_funcs.py: preprocessing, clustering and differential analysis coverage.py: functions to calculate coverage of a genomic region in single-cell ATAC-seq and integrate with AtacWorks for denoising and peak calling visualize.py: functions to create interactive visualizations of single-cell data using RAPID and Plotly.