Remove sites with multiple variant bases from a
SummarizedExperiment. rowData() gains a new column, ALT, that
contains the variant allele detected at each site.
Value
SummarizedExperiment::SummarizedExperiment with multiallelic sites
removed. A new column,ALT will be added to rowData() indicating the
single allele present at the site.
See also
Other se-filters:
filter_clustered_variants(),
filter_splice_variants()
Examples
rse_adar_ifn <- mock_rse()
filter_multiallelic(rse_adar_ifn)
#> ℹ `filter_multiallelic()`: removed 2 sites from 74 (72 remain)
#> class: RangedSummarizedExperiment
#> dim: 72 2
#> metadata(0):
#> assays(7): ALT nRef ... nC nG
#> rownames(72): site_SSR3_102_2 site_SSR3_125_2 ... site_DHFR_430_2
#> site_DHFR_513_2
#> rowData names(5): REF rpbz vdb sor ALT
#> colnames(2): wt adar1_ko
#> colData names(1): sample