PubScore

This package is for version 3.13 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see PubScore .

Automatic calculation of literature relevance of genes


Bioconductor version: 3.13

Calculates the importance score for a given gene. The importance score is the total counts of articles in the pubmed database that are a result for that gene AND each term of a list.

Author: Tiago Lubiana [aut, cre], Helder Nakaya [aut, ths]

Maintainer: Tiago Lubiana <tiago.lubiana.alves at usp.br>

Citation (from within R, enter citation("PubScore")):

Installation

To install this package, start R (version "4.1") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("PubScore")

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("PubScore")
FCBF : Fast Correlation Based Filter for Feature Selection HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews BiomedicalInformatics, Epigenetics, GeneExpression, GeneSetEnrichment, Genetics, SingleCell, Software, SystemsBiology, Visualization
Version 1.4.0
In Bioconductor since BioC 3.11 (R-4.0) (4 years)
License MIT + file LICENSE
Depends R (>= 4.0.0)
Imports ggplot2, igraph, ggrepel, rentrez, progress, graphics, dplyr, utils, methods, intergraph, network, sna
System Requirements
URL
See More
Suggests FCBF, plotly, SummarizedExperiment, SingleCellExperiment, knitr, rmarkdown, testthat (>= 2.1.0), BiocManager, biomaRt
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package PubScore_1.4.0.tar.gz
Windows Binary PubScore_1.4.0.zip
macOS 10.13 (High Sierra) PubScore_1.4.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/PubScore
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/PubScore
Bioc Package Browser https://code.bioconductor.org/browse/PubScore/
Package Short Url https://bioconductor.org/packages/PubScore/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.13 Source Archive