The quality control passed list of genetic maps may be manually curated further with remove_manual() when the map merging process identified a linkage group witihn a map that gives a high Root Mean Square Error. In the case of interspecific crosses one complete map could be better to exclude all together.
A mapfuser object genetics maps after map_orient() has been performed
A list of linkage group ID's to remove
The input object is returned in which the linkage group ID have been removed. Manually removed linkage group ID are saved to the removed_LGIDs config slot
Dennis van Muijen
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fpath <- system.file("extdata", package="mapfuser") maps <- list.files(fpath, pattern = "-1", full.names = TRUE) MF.obj <- read_maps(mapfiles = maps, sep = ",", header = TRUE, type = "delim") MF.obj <- map_qc(MF.obj) ## Remove two linkage groups manually to_remove <- c("Col-0_Blh-1.csv_1","Col-0_Blh-1.csv_2" ) MF.obj <- remove_manual(MF.obj, to_remove)
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