Retrieves genotype calls from the /allelematrix endpoint and returns a
tidy tibble with one row per (variant, callSet) combination. The
/allelematrix response has a unique structure (2-D pagination, no
result$data envelope) so it cannot use the generic brapi_get().
Arguments
- con
A
brapi_connection()object.- variantSetDbId
Character or NULL. Filter by variant set.
- ...
Additional query parameters (e.g.
expandHomozygotes,unknownString,sepPhased,sepUnphased).
Examples
# \donttest{
con <- brapi_connection("https://test-server.brapi.org")
brapi_allele_matrix(con, variantSetDbId = "variantset1")
#> # A tibble: 260 × 3
#> variantDbId callSetDbId genotype
#> <chr> <chr> <chr>
#> 1 variant01 callset01 0/0
#> 2 variant01 callset02 1/0
#> 3 variant01 callset03 1/0
#> 4 variant01 callset04 1/0
#> 5 variant01 callset05 1/0
#> 6 variant01 callset06 0/0
#> 7 variant01 callset07 1/0
#> 8 variant01 callset08 .
#> 9 variant01 callset09 1/0
#> 10 variant01 callset10 1/0
#> # ℹ 250 more rows
# }