Beachmat: A Bioconductor C++ API for accessing high-throughput biological data from a variety of R matrix types.

ABSTRACT: Biological experiments involving genomics or other high-throughput assays typically yield a data matrix that can be explored and analyzed using the R programming language with packages from the Bioconductor project. Improvements in the throughput of these assays have resulted in an explosion of data even from routine experiments, which poses a challenge to the existing computational infrastructure for statistical data analysis. For example, single-cell RNA sequencing (scRNA-seq) experiments frequently generate large matrices containing expression values for each gene in each cell, requiring sparse or file-backed representations for memory-efficient manipulation in R. These alternative representations are not easily compatible with high-performance C++ code used for computationally intensiv

SUBMITTER: Lun ATL 

PROVIDER: S-EPMC5953501 | biostudies-literature | 2018 May

REPOSITORIES: biostudies-literature