Unknown

Dataset Information

0

R.JIVE for exploration of multi-source molecular data.


ABSTRACT: : The integrative analysis of multiple high-throughput data sources that are available for a common sample set is an increasingly common goal in biomedical research. Joint and individual variation explained (JIVE) is a tool for exploratory dimension reduction that decomposes a multi-source dataset into three terms: a low-rank approximation capturing joint variation across sources, low-rank approximations for structured variation individual to each source and residual noise. JIVE has been used to explore multi-source data for a variety of application areas but its accessibility was previously limited. We introduce R.JIVE, an intuitive R package to perform JIVE and visualize the results. We discuss several improvements and extensions of the JIVE methodology that are included. We illustrate the package with an application to multi-source breast tumor data from The Cancer Genome Atlas.R.JIVE is available via the Comprehensive R Archive Network (CRAN) under the GPLv3 license: https://cran.r-project.org/web/packages/r.jive/elock@umn.eduSupplementary data are available at Bioinformatics online.

SUBMITTER: O'Connell MJ 

PROVIDER: S-EPMC6090891 | BioStudies | 2016-01-01T00:00:00Z

REPOSITORIES: biostudies

Similar Datasets

2018-01-01 | S-EPMC6290884 | BioStudies
2013-01-01 | S-EPMC3901538 | BioStudies
2019-01-01 | S-EPMC6694479 | BioStudies
2017-01-01 | S-EPMC5324240 | BioStudies
1000-01-01 | S-EPMC3624805 | BioStudies
1000-01-01 | S-EPMC6182835 | BioStudies
2019-01-01 | S-EPMC6341661 | BioStudies
1000-01-01 | S-EPMC4817050 | BioStudies
2013-01-01 | S-EPMC3712213 | BioStudies
1000-01-01 | S-EPMC5925770 | BioStudies