pathway(trait, pval_threshold = 1e-05, mode = c("table", "raw"))

Arguments

trait

A trait name

pval_threshold

P-value threshold

mode

If mode = "table", returns a data frame (a tibble as per tidyverse convention). If mode = "raw", returns a raw response from EpiGraphDB API with minimal parsing done by httr.

Value

Data from GET /pathway

Examples

pathway(trait = "Body mass index")
#> # A tibble: 1,100 x 12 #> gwas.id gwas.trait gwas_to_variant.b… gwas_to_variant.… gwas_to_variant.… #> <chr> <chr> <dbl> <dbl> <dbl> #> 1 ieu-a-2 Body mass in… 0.0803 0.003 2.17e-158 #> 2 ieu-a-2 Body mass in… 0.0803 0.003 2.17e-158 #> 3 ieu-a-2 Body mass in… 0.0803 0.003 2.17e-158 #> 4 ieu-a-8… Body mass in… 0.0818 0.0031 7.52e-153 #> 5 ieu-a-8… Body mass in… 0.0818 0.0031 7.52e-153 #> 6 ieu-a-8… Body mass in… 0.0818 0.0031 7.52e-153 #> 7 ieu-a-7… Body mass in… 0.084 0.0041 4.11e- 94 #> 8 ieu-a-7… Body mass in… 0.084 0.0041 4.11e- 94 #> 9 ieu-a-7… Body mass in… 0.084 0.0041 4.11e- 94 #> 10 ieu-a-9… Body mass in… 0.0774 0.0039 4.87e- 86 #> # … with 1,090 more rows, and 7 more variables: #> # gwas_to_variant.samplesize <dbl>, gwas_to_variant.eaf <dbl>, #> # variant.name <chr>, gene.name <chr>, protein.uniprot_id <chr>, #> # pathway.id <chr>, pathway.name <chr>