Pinned Repositories
aleksobrad.github.io
(Pre-release) An easy-to-use, flexible website template for labs, with automatic citations, GitHub tag imports, pre-built components, and more
AWISH
Fu-J-et-al.-LGVHR-manuscript
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.
PISCES
R package for Protein activity analysis of single-cell RNAseq.
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.
VECTR
WCDT
WGS Analysis for Quigley et al. 2018
Aleksobrad's Repositories
Aleksobrad/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
Aleksobrad/PISCES
R package for Protein activity analysis of single-cell RNAseq.
Aleksobrad/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.
Aleksobrad/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/aleksobrad.github.io
(Pre-release) An easy-to-use, flexible website template for labs, with automatic citations, GitHub tag imports, pre-built components, and more
Aleksobrad/AWISH
Aleksobrad/Fu-J-et-al.-LGVHR-manuscript
Aleksobrad/VECTR
Aleksobrad/WCDT
WGS Analysis for Quigley et al. 2018