search_expression_levels: Search for Expression Levels

In Rga4gh: An Interface to the GA4GH API

Description

Search for Expression Levels

Usage

search_expression_levels(client, rna_quantification_id = NULL,
  feature_ids = NULL, threshold = NULL, page_size = NULL,
  page_token = NULL)

Arguments

client	A ga4gh_client object
rna_quantification_id	The ID of the RNA Quantification to search within
feature_ids	A list of Feature IDs. Only return expressions with any of the specified feature_ids.
threshold	Number
page_size	Specifies the maximum number of results to return in a single page. If unspecified, the client default will be used.
page_token	The continuation token, which is used to page through large result sets. To get the next page of results, set this parameter to the value of nextPageToken from the previous response.

Examples

ref_client <- ga4gh_client("http://1kgenomes.ga4gh.org", api_location = "")

## Not run: 

library(magrittr)
## Find a dataset to search in
datasets <- ref_client %>% search_datasets() %>% content()
d_id <- datasets$datasets[[1]]$id

## Find an rna quantification set to search in
rna_quantification_sets <- ref_client %>%
 search_rna_quantification_sets(d_id) %>% content()
rqs_id <- rna_quantification_sets$rnaQuantificationSets[[1]]$id

## Find an rna quantification to search in
rna_quantifications <- ref_client %>%
 search_rna_quantifications(rqs_id) %>% content()
rq_id <- rna_quantifications$rnaQuantifications[[1]]$id

## Search for expression levels in the rna quantification
expression_levels <- ref_client %>%
 search_expression_levels(rq_id) %>% content()
expression_levels


## End(Not run)

Rga4gh documentation built on May 1, 2019, 6:35 p.m.