Supplementary data for ENACT: End-to-End Analysis and Cell Type Annotation for Visium High Definition (HD) Slides

This project contains the datasets used to evaluate and reproduce the results of ENACT (End-to-End Analysis and Cell TypeAnnotation for Visium HD Slides). The dataset consists of:

a sample Visium HD sample of human colorectal cancer, courtesy of 10X Genomics (Visium HD Spatial Gene Expression Library, Human Colorectal Cancer (FFPE) - 10x Genomics). All credit goes to 10X Genomics.

configuration files to be used to reproduce the results provided in the ENACT publication, 

evaluation plots used in the ENACT publication, and

results obtained after running ENACT on the human colorectal cancer sample using the four bin-to-cell assignment methods (naive, weighted_by_area, weighted_by_transcript, and weighted_by_cluster) and the three cell annotation methods (Sargent, CellAssign, CellTypist)

Additionally, results from running ENACT on the following three public VisiumHD samples are provided to showcase ENACT’s tissue-agnostic nature:

Human Lung FFPE sample from a subject with Adenocarcinoma (age and gender unspecified),

Human Tonsil Fresh Frozen sample from a 21 year old male subject with Reactive Follicular Hyperplasia,

Human Breast Fresh Frozen sample from a 58 year old female subject with Ductal Carcinoma in Situ (DCIS).