getGenome: Retrieve a genome from the OMA Browser database
In klarakaleb/roma: R wrapper for the OMA REST API
getGenome R Documentation
Retrieve a genome from the OMA Browser database
Description
This function obtains the basic information for one specific genome available
on the OMA Browser, or - if no id is provided - a dataframe with all available
genomes.
Usage
getGenome(id = NULL, attribute = NULL)
Arguments
id
A genome identifier. By default, all available genomes will be returned.
attribute
An extra attribute to be returned (proteins)
Details
Ids can be either the scientific name of a species, the NCBI taxonomy id or
the UniProtKB mnemonic species code.
The optional argument attribute can be used to directly load the proteins
belonging to the genome. Alternatively, you can access the proteins attribute
of the result which will transparently load the proteins from the OMA Browser.
Value
an object containing the JSON keys as attributes or a dataframe
Examples
getGenome()
getGenome(id='HUMAN')
getGenome(id=9606)
getGenome(id='HUMAN',attribute='proteins')
klarakaleb/roma documentation built on April 21, 2024, 8:39 a.m.
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| getGenome | R Documentation |
Retrieve a genome from the OMA Browser database
Description
This function obtains the basic information for one specific genome available on the OMA Browser, or - if no id is provided - a dataframe with all available genomes.
Usage
getGenome(id = NULL, attribute = NULL)
Arguments
id |
A genome identifier. By default, all available genomes will be returned. |
attribute |
An extra attribute to be returned (proteins) |
Details
Ids can be either the scientific name of a species, the NCBI taxonomy id or the UniProtKB mnemonic species code.
The optional argument attribute can be used to directly load the proteins belonging to the genome. Alternatively, you can access the proteins attribute of the result which will transparently load the proteins from the OMA Browser.
Value
an object containing the JSON keys as attributes or a dataframe
Examples
getGenome()
getGenome(id='HUMAN')
getGenome(id=9606)
getGenome(id='HUMAN',attribute='proteins')
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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