We propose DENDRO, a statistical framework takes scRNA-seq data for a tumor and accurately reconstructs its phylogeny, assigning each single cell from the scRNA-seq data to a subclone. Our approach allows us to (1) cluster cells based on genomic profiles while accounting for transcriptional bursting, technical dropout and sequencing error, as benchmarked on in silico mixture and a spike-in analysis, (2) make robust mutation profile inference in subclonal resolution, and (3) perform DNA-RNA joint analysis with same set of cells and examine the relationship between transcriptomic variation and mutation profile. In addition,
Package details |
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Author | Zilu Zhou, Nancy R. Zhang |
Maintainer | Zilu Zhou <zhouzilu@pennmedicine.upenn.edu> |
License | GPL-3 |
Version | 0.2.2 |
Package repository | View on GitHub |
Installation |
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