Dataset Information
Software Application Profile: PHESANT: a tool for performing automated phenome scans in UK Biobank.
Ontology highlight
ABSTRACT: Motivation
Epidemiological cohorts typically contain a diverse set of phenotypes such that automation of phenome scans is non-trivial, because they require highly heterogeneous models. For this reason, phenome scans have to date tended to use a smaller homogeneous set of phenotypes that can be analysed in a consistent fashion. We present PHESANT (PHEnome Scan ANalysis Tool), a software package for performing comprehensive phenome scans in UK Biobank.General features
PHESANT tests the association of a specified trait with all continuous, integer and categorical variables in UK Biobank, or a specified subset. PHESANT uses a novel rule-based algorithm to determine how to appropriately test each trait, then performs the analyses and produces plots and summary tables.Implementation
The PHESANT phenome scan is implemented in R. PHESANT includes a novel Javascript D3.js visualization and accompanying Java code that converts the phenome scan results to the required JavaScript Object Notation (JSON) format.Availability
PHESANT is available on GitHub at [https://github.com/MRCIEU/PHESANT]. Git tag v0.5 corresponds to the version presented here.
SUBMITTER: Millard LAC
PROVIDER: S-EPMC5837456 | biostudies-literature | 2018 Feb
REPOSITORIES: biostudies-literature
Publications
Software Application Profile: PHESANT: a tool for performing automated phenome scans in UK Biobank.
International journal of epidemiology 20171005 1
<h4>Motivation</h4>Epidemiological cohorts typically contain a diverse set of phenotypes such that automation of phenome scans is non-trivial, because they require highly heterogeneous models. For this reason, phenome scans have to date tended to use a smaller homogeneous set of phenotypes that can be analysed in a consistent fashion. We present PHESANT (PHEnome Scan ANalysis Tool), a software package for performing comprehensive phenome scans in UK Biobank.<h4>General features</h4>PHESANT tests ...[more]