Filter dataset with whitelist of markers

Filter dataset with whitelist of markers Used internally in radr and might be of interest for users.

Filter target: Markers.

Usage

filter_whitelist(data, whitelist.markers = NULL, verbose = TRUE, ...)

Arguments

data

(4 options) A file or object generated by radr:

• tidy data

• Genomic Data Structure (GDS)

How to get GDS and tidy data ? Use read_genome to import supported formats and tidy_genome when a tidy table is needed.

whitelist.markers

A data frame or path to a tab-separated whitelist. It may contain one or more of MARKERS, CHROM, LOCUS, POS, VARIANT_ID, and M_SEQ. Default: whitelist.markers = NULL.

verbose

Logical indicating whether progress messages are emitted. Default: verbose = TRUE.

...

Additional arguments passed to lower-level screening or filtering functions.

See also

read_whitelist.

Author

Thierry Gosselin thierrygosselin@icloud.com

Examples

if (FALSE) { # \dontrun{
data <- radr::filter_whitelist(data = data, whitelist.markers = "mywhitelist.tsv")
} # }