adamyhe/TROGDOR

Transcription Run-On Grants Detection Of Regulatory elements (TROGDOR).

TROGDOR identifies transcription initiation regions (TIRs) from stranded nascent RNA sequencing data (GRO-seq, PRO-seq, ChRO-seq, mNET-seq, etc.). It uses a 1D U-Net model and a tiled image segmentation approach to achieve SOTA performance at predicting TIRs while maintaining computational efficiency.

The TROGDOR pipeline (including model module) can be installed using pip install trogdor, or from the source code at https://github.com/adamyhe/trogdor