View source: R/get_multi_tissue_eqtls.R
get_multi_tissue_eqtls | R Documentation |
Find multi-tissue eQTL Metasoft
results.
This service returns multi-tissue eQTL Metasoft results for a given gene and variant in a specified dataset.
A Versioned GENCODE ID must be provided.
For each tissue, the results include: m-value (mValue), normalized effect size (nes), p-value (pValue), and standard error (se).
The m-value is the posterior probability that an eQTL effect exists in each tissue tested in the cross-tissue meta-analysis (Han and Eskin, PLoS Genetics 8(3): e1002555, 2012).
The normalized effect size is the slope of the linear regression of normalized expression data versus the three genotype categories using single-tissue eQTL analysis, representing eQTL effect size.
The p-value is from a t-test that compares observed NES from single-tissue eQTL analysis to a null NES of 0.
By default, the service queries the latest GTEx release. The retrieved data is split into pages with items_per_page
entries per page
get_multi_tissue_eqtls(
gencodeIds,
variantId = NULL,
datasetId = "gtex_v8",
page = 0,
itemsPerPage = 250
)
gencodeIds |
A character vector of Versioned GENCODE IDs, e.g. c("ENSG00000132693.12", "ENSG00000203782.5"). |
variantId |
String. A gtex variant ID. |
datasetId |
String. Unique identifier of a dataset. Usually includes a data source and data release. Options: "gtex_v8", "gtex_snrnaseq_pilot". |
page |
Integer (default = 0). |
itemsPerPage |
Integer (default = 250). |
A tibble.
Other Static Association Endpoints:
get_eqtl_genes()
,
get_fine_mapping()
,
get_independent_eqtl()
,
get_significant_single_tissue_eqtls()
,
get_significant_single_tissue_eqtls_by_location()
,
get_significant_single_tissue_ieqtls()
,
get_significant_single_tissue_isqtls()
,
get_significant_single_tissue_sqtls()
,
get_sqtl_genes()
## Not run:
# search by gene
get_multi_tissue_eqtls(gencodeId = c("ENSG00000132693.12",
"ENSG00000203782.5"))
## End(Not run)
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