synaptome.db
This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see synaptome.db.
Synamptosome Proteome Database
Bioconductor version: 3.16
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")):
Installation
To install this package, start R (version "4.2") 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 | 0.99.12 |
| 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 |
| Linking To | |
| Enhances | |
| 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 |