Aleksobrad's repositories
single-cell-rcc-pipeline
Data files and code for analysis of single-cell ccRCC data for the manuscript "Tumor-Specific Cell Populations in Clear Cell Renal Carcinoma Associated with Clinical Outcome Identified Using Single-Cell Protein Activity Inference." Includes code for VIPER protein activity inference pipeline
TCR-analysis
Code used for analysis of tabular CDR3 T-Cell Receptor Sequencing Data. Includes functions for Jensen-Shannon Divergence, Clonality, CD4/CD8 sort disambiguation, and alloreactivity determination from matched unstimulated and stimulated samples, with adjustable sensitivity thresholds.
Humanized-Mouse-Data
Includes lists of shared clones and unshared clones, cross-reactives and allo-non-cross-reactives, t1d clones, and raw single-cell sequencing files. Also includes full TCR-Sequencing .tsv output from Adaptive ImmunoSeq.
aleksobrad.github.io
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