The genbankr
package is part of the Bioconductor ecosystem of R packages. As
such, it's primary splash page - including continuous integration and testing
badges - can be found here.
genbankr
is a package which provides utilities to parse GenBank and GenPept
files into data structures which integrate with the Bioconductor ecosystem.
This package depends on the Bioconductor ecosystem of R packages. If you already have a version of Bioconductor (>=3.3) installed, you can do gthe following:
library(BiocManager)
BiocManager::install("genbankr")
If you do not currently have the Bioconductor core machinery installed, you can get the current or release version like so:
if (!requireNamespace("BiocManager", quietly=TRUE))
install.packages("BiocManager")
for release and
if (!requireNamespace("BiocManager", quietly=TRUE))
install.packages("BiocManager")
BiocManager::install(version = "devel")
For devel.
After doing one of the above (once), you can install genbankr
as above, via
library(BiocManager)
BiocManager::install("genbankr")
Note that Bioconductor is a sychronized development and release
platform, so release and development versions of Bioconductor packages
cannot be safely mixed in the same package (installation) library. Use switchr
or direct .libPaths
management to maintain multiple side-by-side installations
if necessary.
To install directly from github (this will generally not be necessary
unless you intend to contribute to genbankr
's development), do
if (!requireNamespace("BiocManager", quietly=TRUE))
install.packages("BiocManager")
BiocManager::install(version = "devel")
BiocManager::install("gmbecker/genbankr")
The Bioconductor development repository will contain the latest development version of genbankr which has passed testing (lagged by about a day).
This project operates under the Contributor Covenenant Code of Coduct see here
The genbankr
package is a part of the Bioconductor and rOpenSci projects.
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