GitHub - bouralab/ProteinFragmenter: DSI Capstone Project

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Name		Name	Last commit message	Last commit date
Latest commit History 49 Commits
feature/feature-3.1.0		feature/feature-3.1.0
.gitattributes		.gitattributes
BiLSTM_Ruoyan.ipynb		BiLSTM_Ruoyan.ipynb
CAPSDB.h5		CAPSDB.h5
CAPSDB_exploration.ipynb		CAPSDB_exploration.ipynb
CapdDB-BiLSTM.ipynb		CapdDB-BiLSTM.ipynb
CapsDB-LSTM-classifier.ipynb		CapsDB-LSTM-classifier.ipynb
CapsDB-preprocdata.ipynb		CapsDB-preprocdata.ipynb
Parse_Feature_Vectors.ipynb		Parse_Feature_Vectors.ipynb
README.txt		README.txt
anomalies_capsdb.ipynb		anomalies_capsdb.ipynb
caps_descriptors.parquet		caps_descriptors.parquet
caps_lengths.csv		caps_lengths.csv
data_generator_svm_final.ipynb		data_generator_svm_final.ipynb
helix_lengths.csv		helix_lengths.csv
mmtfToASA.py		mmtfToASA.py
pickles.tar		pickles.tar
poisson_fits.R		poisson_fits.R
process_caps_db.py		process_caps_db.py
secondaryStructureExtractorFull.py		secondaryStructureExtractorFull.py
sequence_lengths.csv		sequence_lengths.csv
svm_classifier_final.ipynb		svm_classifier_final.ipynb
typelen.csv		typelen.csv

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# ProteinFragmenter

Identify protein fragments such as "ideal" secondary sturcutres and super secondar structure elements.

The first approach will be to idenitfy helix caps to know when alpha helics should end.

Slides: https://docs.google.com/presentation/d/1h7rX2EGOY-XEg1mXsi705mKYrBSCXyKc25M42mtX9rY/edit?usp=sharing