Pi

Leveraging Genetic Evidence to Prioritise Drug Targets at the Gene and Pathway Level


Bioconductor version: Release (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 (from within R, enter 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 PDF

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
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package
Windows Binary
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/
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