Awesome
BUS python notebooks
This repository contains example python notebooks for parsing and processing BUS format single-cell RNA-seq files.
To run the notebooks, make sure you have kallisto >= 0.45 and bustools installed. The source and binaries are available at:
Getting started
We recommend beginners work through this notebook:
10x v2 chemistry - 6k Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells
Complete notebooks
These notebooks can be used to completely process datasets, starting with downloading the raw data all the way to basic QC plots. They are intended as tutorials on the use of the BUS format.
10x v2 chemistry - 100 1:1 Mixture of Fresh Frozen Human (HEK293T) and Mouse (NIH3T3) Cells
10x v2 chemistry - 1k Brain Cells from an E18 Mouse
10x v3 chemistry - 1k Brain Cells from an E18 Mouse
Notebooks in progress
These notebooks are still a work in progress and may not have all the code needed to download and process data automatically.