synaptome.db
This is the released version of synaptome.db; for the devel version, see synaptome.db.
Synamptosome Proteome Database
Bioconductor version: Release (3.23)
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>
citation("synaptome.db")):Anatoly Sorokin, Oksana Sorokina, J. Douglas Armstrong. synaptome.db: Synamptosome Proteome Database. doi:10.18129/B9.bioc.synaptome.db, R package version 0.99.17, https://bioconductor.org/packages/synaptome.db.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") 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")| synaptome_db_query | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | AnnotationData, AnnotationHub, CustomDBSchema, FunctionalAnnotation |
| Version | 0.99.17 |
| In Bioconductor since | BioC 3.14 (R-4.1) (5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.5.0), synaptome.data |
| Imports | DBI, RSQLite, dplyr, dbplyr, igraph, Rdpack, AnnotationHub, utils |
| System Requirements | |
| URL | |
| Bug Reports | https://github.com/lptolik/synaptome.db/issues/ |
See More
| Suggests | rmarkdown, knitr, pander, testthat, devtools, markdown, ggplot2 |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | synaptome.db_0.99.17.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Package Short Url | https://bioconductor.org/packages/synaptome.db/ |
| Package Downloads Report | Download Stats |