C3 (aka c-cubed)

Cancer Clustering Collaborative - Inferring NF2 Treatment Based on Similarity to characterized cancers
Details of our analysis can before found in our poster and final presentation

SVAI Hackathon June 2017

Codes for the main analysis steps in our project are listed here.

VCF Filtering: VCF_filtering.ipynb
TCGA Data Loading/Processing: Broad FireHose Dat.ipynb
Mutational Signature and mutated gene/GO term Extraction, preparing matrices for clustering: tcga_processing.R
Dimensional reduction and Cluster Analysis: Cluster Analysis.ipynb
Gene Mutation Localization: NF2 VCF Analysis.ipynb

Name		Name	Last commit message	Last commit date
Latest commit History 22 Commits
Broad FireHose Data.ipynb		Broad FireHose Data.ipynb
C3finalpresentation.pdf		C3finalpresentation.pdf
Cluster Analysis.ipynb		Cluster Analysis.ipynb
Go_Biological_Processing.ipynb		Go_Biological_Processing.ipynb
HackPoster.pdf		HackPoster.pdf
LICENSE		LICENSE
NF2 VCF Analysis.ipynb		NF2 VCF Analysis.ipynb
Oncotate filter VCF data.ipynb		Oncotate filter VCF data.ipynb
README.md		README.md
VCF_filtering.ipynb		VCF_filtering.ipynb
tcga_processing.R		tcga_processing.R