Steps for contact mapping

We produced a human reference SH2 CSV file. We hand annotated/identified differences (as noted in the notebook)
We produced a human reference SH2 Fasta file
We used promals3d to align
We produced a structure reference file for all PDB IDs for the uniprot IDs from our reference, then annotated that structure reference file with UniprotRefFile in order to get inclusive domains.
We filtered to relevant PDBs that spanned SH2 domains within them.

Name		Name	Last commit message	Last commit date
Data		Data
merge_features		merge_features
sh2ome_coverage		sh2ome_coverage
.gitignore		.gitignore
LICENSE		LICENSE
README.md		README.md
SH2_AdjacencyFiles_generation.ipynb		SH2_AdjacencyFiles_generation.ipynb
SH2_AlphaFold_contactmapping.ipynb		SH2_AlphaFold_contactmapping.ipynb
SH2_contact_projection.ipynb		SH2_contact_projection.ipynb
SH2_contactmaps_generation.ipynb		SH2_contactmaps_generation.ipynb
SH2_domain_setup.ipynb		SH2_domain_setup.ipynb
SH2_feature_analysis.ipynb		SH2_feature_analysis.ipynb
SH2_interdomain_PAE.ipynb		SH2_interdomain_PAE.ipynb
SH2_mutation_analysis.ipynb		SH2_mutation_analysis.ipynb
SH2_mutations_extraction.ipynb		SH2_mutations_extraction.ipynb

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