zhouzilu/DENDRO: Dna based EvolutioNary tree preDiction by scRna-seq technOlogy

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,

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Package details

AuthorZilu Zhou, Nancy R. Zhang
MaintainerZilu Zhou <[email protected]>
LicenseGPL-3
Version0.2.1
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("zhouzilu/DENDRO")
zhouzilu/DENDRO documentation built on Nov. 6, 2019, 7:56 a.m.