Pi
This package is for version 3.19 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see PAPi.
Leveraging Genetic Evidence to Prioritise Drug Targets at the Gene and Pathway Level
Bioconductor version: 3.19
Priority index or Pi is developed as a genomic-led target prioritisation system. It integrates functional genomic predictors, knowledge of network connectivity and immune ontologies to prioritise potential drug targets at the gene and pathway level.
Author: Hai Fang, the ULTRA-DD Consortium, Julian C Knight
Maintainer: Hai Fang <hfang.shanghai at gmail.com>
citation("Pi")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Pi")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | GeneExpression, GeneTarget, Genetics, GenomeWideAssociation, GraphAndNetwork, HiC, LinkageDisequilibrium, Network, Pathways, Software |
| Version | 2.16.0 |
| In Bioconductor since | BioC 3.4 (R-3.3) (8 years) |
| License | GPL-3 |
| Depends | igraph, dnet, ggplot2, graphics |
| Imports | Matrix, GenomicRanges, GenomeInfoDb, supraHex, scales, grDevices, ggrepel, ROCR, randomForest, glmnet, lattice, caret, plot3D, stats, methods, MASS, IRanges, BiocGenerics, dplyr, tidyr, ggnetwork, osfr, RCircos, purrr, readr, tibble |
| System Requirements | |
| URL | http://pi314.r-forge.r-project.org |
| Bug Reports | https://github.com/hfang-bristol/Pi/issues |
See More
| Suggests | foreach, doParallel, BiocStyle, knitr, rmarkdown, png, GGally, gridExtra, ggforce, fgsea, RColorBrewer, ggpubr, rtracklayer, ggbio, Gviz, data.tree, jsonlite |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
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| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/Pi |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/Pi |
| Package Short Url | https://bioconductor.org/packages/Pi/ |
| Package Downloads Report | Download Stats |