Páll Melsted1, Vasilis Ntranos2, Lior Pachter2,3. 1. Faculty of Industrial Engineering, Mechanical Engineering and Computer Science, University of Iceland, Reykjavik, Iceland. 2. Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA. 3. Department of Computing & Mathematical Sciences, California Institute of Technology, Pasadena, CA, USA.
Abstract
SUMMARY: We introduce the Barcode-UMI-Set format (BUS) for representing pseudoalignments of reads from single-cell RNA-seq experiments. The format can be used with all single-cell RNA-seq technologies, and we show that BUS files can be efficiently generated. BUStools is a suite of tools for working with BUS files and facilitates rapid quantification and analysis of single-cell RNA-seq data. The BUS format therefore makes possible the development of modular, technology-specific and robust workflows for single-cell RNA-seq analysis. AVAILABILITY AND IMPLEMENTATION: http://BUStools.github.io/ and http://pachterlab.github.io/kallisto/singlecell.html. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
SUMMARY: We introduce the Barcode-UMI-Set format (BUS) for representing pseudoalignments of reads from single-cell RNA-seq experiments. The format can be used with all single-cell RNA-seq technologies, and we show that BUS files can be efficiently generated. BUStools is a suite of tools for working with BUS files and facilitates rapid quantification and analysis of single-cell RNA-seq data. The BUS format therefore makes possible the development of modular, technology-specific and robust workflows for single-cell RNA-seq analysis. AVAILABILITY AND IMPLEMENTATION: http://BUStools.github.io/ and http://pachterlab.github.io/kallisto/singlecell.html. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
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