# Input Data and the related pre-processing scripts

1. **em**: See `em/README.md`
2. **homology**: See `homology/README.md`
3. **clustal**: Contains the [Clustal-Omega](https://www.google.com/search?q=clustalomega) alignment outputs used in modeling. The alignments include between Bovine/Xenopus PG/DP and Human PG/DP and between PKP1 and PKP3 to map [Immuno-EM data](doi.org).
4. **psipred**: Contains the files pertaining to a secondary structure prediction to identify disordered protein domains performed on the [PSIPRED](http://bioinf.cs.ucl.ac.uk/psipred/) server for all ODP proteins.
5. **data**: The files (and the appropriate directory structure) needed for the main run (epithelial ODP). See [scripts README](https://github.com/isblab/desmosome/blob/main/scripts/README.md) for more details.
