SC-Framework

The SC-Framework is a single cell analysis pipeline that allows for reproducible and streamlined analysis while retaining the flexibility that is needed to explore single cell datasets. It is comprised of a python package that provides a collection of functions supported by extensive documentation to work on single cell data. And jupyter notebooks that string these individual functions into an easy to follow and reproducible step-by-step analysis. The SC-Framework provides notebooks to do analysis on RNA as well as ATAC analysis, which are set up to automatically create folder structure populated by a varity of visualizations, tables and log-files among other things.