Abstract
Recent technical improvements in single-cell RNA sequencing (scRNA-seq) have enabled massively parallel profiling of transcriptomes, thereby promiting large-scale studies encompassing a wide range of cell types of multicellular organisms. With this background, we propose CellFishing.jl, a new method for searching atlas-scale data sets for similar cells with high accuracy and throughput. Using multiple scRNA-seq data sets, we validate that our method demonstrates comparable accuracy to and is strikingly faster than the state-of-the-art software. Moreover, CellFishing.jl is scalable to more than one million cells, and the throughput of the search is approximately 1,350 cells per second (i.e., 0.74 ms per cell).
Copyright
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Posted July 25, 2018.
CellFishing.jl: an ultrafast and scalable cell search method for single-cell RNA-sequencing
