This is a companion website to the TOP package and
contains the data resources and data processing pipelines for the TOP paper.
- Example pipelines using Snakemake to
generate TOP training data used in the
TOPpaper. - Pretrained
TOPmodel parameters. - Precomputed TF occupancy predictions on our lab website.
Reference
- Luo K, Zhong J, Safi A, Hong LK, Tewari AK, Song L, Reddy TE, Ma L, Crawford GE, Hartemink AJ. Profiling the quantitative occupancy of myriad transcription factors across conditions by modeling chromatin accessibility data. Genome Res. 2022 Jun;32(6):1183-1198. doi: 10.1101/gr.272203.120.
License
All source code and software in this repository are made available under the terms of the MIT license.