gsnpense: Convert SNP rs identifiers to genes.
In gprofiler2: Interface to the 'g:Profiler' Toolset
gsnpense R Documentation
Convert SNP rs identifiers to genes.
Description
Interface to the g:Profiler tool g:SNPense (https://biit.cs.ut.ee/gprofiler/snpense) that maps SNP rs identifiers to chromosome positions, genes and variant effects.
Available only for human variants.
Usage
gsnpense(query, filter_na = TRUE)
Arguments
query
vector of SNP IDs to be translated (should start with prefix 'rs').
filter_na
logical indicating whether to filter out results without a
corresponding target name.
Value
The output is a data.frame which is a table closely corresponding to the
web interface output. Columns 'ensgs' and 'gene_names' can contain list of multiple values.
The result fields are further described in the vignette.
Author(s)
Liis Kolberg <liis.kolberg@ut.ee>, Uku Raudvere <uku.raudvere@ut.ee>
Examples
gsnpense(c("rs11734132", "rs7961894", "rs4305276", "rs17396340", "rs3184504"))
gprofiler2 documentation built on May 29, 2024, 8:31 a.m.
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.
| gsnpense | R Documentation |
Convert SNP rs identifiers to genes.
Description
Interface to the g:Profiler tool g:SNPense (https://biit.cs.ut.ee/gprofiler/snpense) that maps SNP rs identifiers to chromosome positions, genes and variant effects. Available only for human variants.
Usage
gsnpense(query, filter_na = TRUE)
Arguments
query |
vector of SNP IDs to be translated (should start with prefix 'rs'). |
filter_na |
logical indicating whether to filter out results without a corresponding target name. |
Value
The output is a data.frame which is a table closely corresponding to the web interface output. Columns 'ensgs' and 'gene_names' can contain list of multiple values.
The result fields are further described in the vignette.
Author(s)
Liis Kolberg <liis.kolberg@ut.ee>, Uku Raudvere <uku.raudvere@ut.ee>
Examples
gsnpense(c("rs11734132", "rs7961894", "rs4305276", "rs17396340", "rs3184504"))
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.