synaptome.db

DOI: 10.18129/B9.bioc.synaptome.db  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see synaptome.db.

Synamptosome Proteome Database

Bioconductor version: 3.17

The package contains local copy of the Synaptic proteome database. On top of this it provide a set of utility R functions to query and analyse its content. It allows extraction of information for specific genes and building the protein-protein interaction graph for gene sets, synaptic compartments, and brain regions.

Author: Anatoly Sorokin [aut], Oksana Sorokina [aut, cre], J. Douglas Armstrong [aut]

Maintainer: Oksana Sorokina <oksana.sorokina at ed.ac.uk>

Installation

To install this package, start R (version "4.3") and enter:

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

BiocManager::install("synaptome.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("synaptome.db")

 

HTML	R Script	synaptome_db_query
PDF		Reference Manual
Text		NEWS

Details

biocViews	AnnotationData, AnnotationHub, CustomDBSchema, FunctionalAnnotation
Version	0.99.12
License	Artistic-2.0
Depends	R (>= 3.5.0), synaptome.data
Imports	DBI, RSQLite, dplyr, dbplyr, igraph, Rdpack, AnnotationHub, utils
LinkingTo
Suggests	rmarkdown, knitr, pander, testthat, devtools, markdown
SystemRequirements
Enhances
URL
BugReports	https://github.com/lptolik/synaptome.db/issues/
Depends On Me
Imports Me	BioNAR
Suggests Me
Links To Me

Package Archives

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

Source Package	synaptome.db_0.99.12.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Package Short Url	https://bioconductor.org/packages/synaptome.db/
Package Downloads Report	Download Stats