Runibic: a Bioconductor package for parallel row-based biclustering of gene expression data.

ABSTRACT:

Motivation

Biclustering is an unsupervised technique of simultaneous clustering of rows and columns of input matrix. With multiple biclustering algorithms proposed, UniBic remains one of the most accurate methods developed so far.

Results

In this paper we introduce a Bioconductor package called runibic with parallel implementation of UniBic. For the convenience the algorithm was reimplemented, parallelized and wrapped within an R package called runibic. The package includes: (i) a couple of times faster parallel version of the original sequential algorithm, (ii) much more efficient memory management, (iii) modularity which allows to build new methods on top of the provided one and (iv) integration with the modern Bioconductor packages such as SummarizedExperiment, Expression

SUBMITTER: Orzechowski P 

PROVIDER: S-EPMC6289127 | biostudies-literature | 2018 Dec

REPOSITORIES: biostudies-literature