pubRepFilter {immunarch} | R Documentation |
Filter out clonotypes from public repertoires
Description
Filter our clonotypes with low incidence in a specific group.
Usage
pubRepFilter(.pr, .meta, .by, .min.samples = 1)
Arguments
.pr |
Public repertoires, an output from pubRep. |
.meta |
Metadata file. |
.by |
Named character vector. Names of the group to filter by. |
.min.samples |
Integer. Filters out clonotypes with the number of samples below than this number. |
Value
Data frame with filtered clonotypes.
Examples
data(immdata)
immdata$data <- lapply(immdata$data, head, 2000)
pr <- pubRep(immdata$data, .verbose = FALSE)
pr1 <- pubRepFilter(pr, immdata$meta, .by = c(Status = "MS"))
head(pr1)
[Package immunarch version 0.9.1 Index]