punkst

punkst provides a set of tools for analyzing high resolution spatial transcriptomics data.

Check the Installation page to install punkst.

Check the Input page for help on preparing your data from vairous platforms.

See Modules for available operations.

punkst also includes a pipeline for efficient pixel level factor analysis (FICTURE (2024)) with improved efficiency and flexibility. (Previous python package is still available but will be deprecated)

Check the quick start page for help on generating a basic pipeline using Makefile or running each command step by step.