HPO.db
This package is for version 3.18 of Bioconductor; for the stable, up-to-date release version, see HPO.db.
A set of annotation maps describing the entire Human Phenotype Ontology
Bioconductor version: 3.18
Human Phenotype Ontology (HPO) was developed to create a consistent description of gene products with disease perspectives, and is essential for supporting functional genomics in disease context. Accurate disease descriptions can discover new relationships between genes and disease, and new functions for previous uncharacteried genes and alleles.We have developed the [DOSE](https://bioconductor.org/packages/DOSE/) package for semantic similarity analysis and disease enrichment analysis, and `DOSE` import an Bioconductor package 'DO.db' to get the relationship(such as parent and child) between MPO terms. But `DO.db` hasn't been updated for years, and a lot of semantic information is [missing](https://github.com/YuLab-SMU/DOSE/issues/57). So we developed the new package `HPO.db` for Human Human Phenotype Ontology annotation.
Author: Erqiang Hu [aut, cre] 
Maintainer: Erqiang Hu <13766876214 at 163.com>
citation("HPO.db")):
Installation
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("HPO.db")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("HPO.db")| HPO_vignette | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | AnnotationData, AnnotationHub, FunctionalAnnotation |
| Version | 0.99.2 |
| License | Artistic-2.0 |
| Depends | R (>= 4.3.0) |
| Imports | AnnotationDbi, AnnotationHub, BiocFileCache, DBI, methods, utils |
| System Requirements | |
| URL | |
| Bug Reports | https://github.com/YuLab-SMU/HPO.db/issues |
See More
| Suggests | rmarkdown, knitr, testthat (>= 3.0.0) |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | DOSE |
| Links To Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | HPO.db_0.99.2.tar.gz |
| Windows Binary | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Package Short Url | https://bioconductor.org/packages/HPO.db/ |
| Package Downloads Report | Download Stats |