Journal article
Interfacing Seurat with the R tidy universe
S Mangiola, MA Doyle, AT Papenfuss
Bioinformatics | OXFORD UNIV PRESS | Published : 2021
Open access
Abstract
Motivation: Seurat is one of the most popular software suites for the analysis of single-cell RNA sequencing data. Considering the popularity of the tidyverse ecosystem, which offers a large set of data display, query, manipulation, integration and visualization utilities, a great opportunity exists to interface the Seurat object with the tidyverse. This interface gives the large data science community of tidyverse users the possibility to operate with familiar grammar. Results: To provide Seurat with a tidyverse-oriented interface without compromising efficiency, we developed tidyseurat, a lightweight adapter to the tidyverse. Tidyseurat displays cell information as a tibble abstraction, al..
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Awarded by National Health and Medical Research Council
Funding Acknowledgements
S.M. was supported by the Lorenzo and Pamela Galli Next Generation Cancer Discoveries Initiative. A.T.P. was supported by an Australian National Health and Medical Research Council (NHMRC) Senior Research Fellowship [1116955]. The research benefitted from the Victorian State Government Operational Infrastructure Support and Australian Government NHMRC Independent Research Institute Infrastructure Support.