README.md

This repository contains scripts used as part of analyses in the 2024 publication *An Atlas Of Conserved Transcription Factor Binding Sites Reveals The Cell Type-Resolved Gene Regulatory Landscape Of Flowering Plants*

### Assigning DAP-seq peaks to genes

- add details here

### Calculating DAP-seq conservation scores (c scores)

- add details here

### Single-cell analysis

- add details here


### Contact the authors
For questions please contact:
- Leo Baumgart lbaumgart@lbl.gov
- Abraham Morales Cruz amoralescruz@lbl.gov 
- Sharon Greenblum greensi@lbl.gov

### Note about reference genomes and annotations included here:
Reference genomes, annotations, and filtered annotations are provided here for transparency and to allow reproduction of relevant analyses. Please note that at the time of preparation of this publication, use of the Sorghum bicolor RTx430 reference genome files is currently restricted to the terms of the Fort Lauderdale Accord. See the methods section for relevant reference genome citations and the supplemental information for a table of reference genomes sources and versions. The Joint Genome Institute provides these data in good faith, but makes no warranty, expressed or implied, nor assumes any legal liability or responsibility for any purpose for which the data are used. Once the sequence is moved to unreserved status, the data will be freely available for any subsequent use. See Phytozome for the current status of each reference genome.