Published August 6, 2025 | Version v1
Model Open

Genomic deep learning models used in tangermeme paper.

Description

Five genomic deep learning models used as part of "tangermeme: A toolkit for understanding cis-regulatory logic using deep learning models." Each model makes predictions for a different readout in K562. The ChromBPNet models and ProCapNet models are from the ENCODE Compendium and the DeepSEA/Beluga model is from Kipoi. A model definition file is included for Beluga that resolves the bespoke alphabet assumed by the authors and corrects the AGCT ordering to the more standard ACGT one. See the tutorials on the tangermeme page for how to load and use these models to reproduce the figures in the paper.

Files

Files (650.4 MB)

Name Size
md5:511ff4f575f6d77c1523ec546e699bbe
1.7 kB Download
md5:62360f2db4ac96554d28d058b50ab654
598.1 MB Download
md5:32058fd94d12c00be2d816b1ac2c6a59
490.1 kB Download
md5:3e1d87741641e45477f6e094c69530a5
25.6 MB Download
md5:6663d95b1299ae1433881a7a51884d14
492.1 kB Download
md5:81e628af368037d769cd569a56e2c268
25.7 MB Download

Additional details

Software

Repository URL
https://github.com/jmschrei/tangermeme
Development Status
Active