Synthetic Data from: Generative and Integrative Modeling for Transcriptomics with Formalin Fixed Paraffin Embedded Material

This repository contains all synthetic datasets used in the manuscript, "Generative and integrative modeling for transcriptomics with formalin fixed paraffin embedded material", currently published on BioRxiv:

https://www.biorxiv.org/content/10.1101/2025.02.21.639356v1

The datasets consist of AnnData files designed to be used by the PREFFECT (PaRaffin Embedded Formalin-FixEd Cleaning Tool, a probabilistic framework for the analysis of RNA sequencing data from formalin-fixed paraffin embedded (FFPE) samples. This software can be found on GitHub here:

https://github.com/hallettmiket/preffect/

Details of the various AnnData files provided in this repository is given in the 'ReadMe.rtf' file.