https://github.com/bioconductor-source/synaptome.db
Science Score: 36.0%
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○CITATION.cff file
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✓codemeta.json file
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○.zenodo.json file
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✓DOI references
Found 1 DOI reference(s) in README -
✓Academic publication links
Links to: nature.com -
○Academic email domains
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○Scientific vocabulary similarity
Low similarity (9.9%) to scientific vocabulary
Repository
Basic Info
- Host: GitHub
- Owner: bioconductor-source
- Language: TeX
- Default Branch: devel
- Size: 319 KB
Statistics
- Stars: 0
- Watchers: 2
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
synaptome.db: programmatic access to the Synaptic proteome database
Description
The package contains local copy of the Synaptic proteome database together with a set of utility R functions to query and analyse its content.
The process of data acqusition, organisation and database structure are described in the paper Sorokina et al. 2021.
Installation
At the moment package could be installed from GitHub:
devtools::install_github('lptolik/synaptome.db')
GitHub Versions
Stable version
Install the latest stable version (see below for latest development version) of synaptome.db from GitHub (as bug-free as it can be):
{r}
devtools::install_github('lptolik/synaptome.db')
Check after installation that the following code does not throw any error and that the welcome message confirms you have installed the latest version:
```{r} library(synaptome.db)
> Loaded synaptome.db ?.?.?
```
Development version
You can also install the development version for new features yet to be widely tested:
{r}
devtools::install_github('lptolik/synaptome.db@devel")
TODO: add cache clearance description
References
- Sorokina O, Mclean C, Croning MDR, Heil KF, Wysocka E, He X, Sterratt D, Grant SGN, Simpson TI, Armstrong JD (2021). “A unified resource and configurable model of the synapse proteome and its role in disease.” Scientific Reports, 11(1), 9967–9. doi: 10.1038/s41598-021-88945-7, https://www.nature.com/articles/s41598-021-88945-7.
Owner
- Name: (WIP DEV) Bioconductor Packages
- Login: bioconductor-source
- Kind: organization
- Email: maintainer@bioconductor.org
- Website: https://bioconductor.org
- Repositories: 1
- Profile: https://github.com/bioconductor-source
Source code for packages accepted into Bioconductor
GitHub Events
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Last Year
Dependencies
- actions/checkout v2 composite
- r-lib/actions/setup-pandoc v1 composite
- r-lib/actions/setup-r v1 composite
- actions/cache v2 composite
- actions/checkout v2 composite
- actions/upload-artifact master composite
- docker/build-push-action v1 composite
- r-lib/actions/setup-pandoc master composite
- r-lib/actions/setup-r master composite
- R >= 3.5.0 depends
- synaptome.data * depends
- AnnotationHub * imports
- DBI * imports
- RSQLite * imports
- Rdpack * imports
- dbplyr * imports
- dplyr * imports
- igraph * imports
- utils * imports
- devtools * suggests
- ggplot2 * suggests
- knitr * suggests
- markdown * suggests
- pander * suggests
- rmarkdown * suggests
- testthat * suggests