Stars
Tools for pooled single cell sequencing experiments: demultiplex cells, infer doublet rate, assign treatments/sgRNAs, infer ambient RNA from allele matching
Quantify and interpret divers of variation in multilevel gene expression experiments
Clean up CAT (Comparative Annotation Toolkit) annotations
Perform differential expression analysis on multi-sample single cell datasets using linear mixed models
Perform differential expression analysis on cohort-scale single cell datasets using linear mixed models
R toolkit for the analysis of single-cell chromatin data
Analysis code and results for dreamlet
Simulation and data analysis code for dream paper