data/amExample1.R

In amregtest: Runs Allelematch Regression Tests

amExample1 <-
structure(list(sampleId = structure(c(1L, 12L, 14L, 15L, 16L, 
17L, 18L, 19L, 20L, 2L, 3L, 4L, 5L, 6L, 7L, 8L, 9L, 10L, 11L, 
13L), levels = c("1", "10", "11", "12", "13", "14", "15", "16", 
"17", "18", "19", "2", "20", "3", "4", "5", "6", "7", "8", "9"
), class = "factor"), knownIndividual = structure(c(1L, 1L, 2L, 
2L, 3L, 3L, 4L, 5L, 6L, 6L, 7L, 7L, 8L, 9L, 9L, 10L, 11L, 11L, 
12L, 12L), levels = c("AAA", "AAB", "AAC", "AAD", "AAE", "AAF", 
"AAG", "AAH", "AAI", "AAJ", "AAK", "AAL"), class = "factor"), 
    LOC1a = structure(c(1L, 1L, 2L, 2L, 1L, 1L, 3L, 2L, 4L, 4L, 
    3L, 3L, 4L, 3L, 3L, 3L, 1L, 1L, 3L, 3L), levels = c("103", 
    "104", "108", "109"), class = "factor"), LOC1b = structure(c(1L, 
    1L, 5L, 5L, 2L, 2L, 2L, 3L, 5L, 5L, 2L, 2L, 3L, 5L, 5L, 2L, 
    2L, 2L, 4L, 4L), levels = c("108", "109", "110", "114", "120"
    ), class = "factor"), LOC2a = structure(c(1L, 1L, 1L, 1L, 
    1L, 1L, 1L, 3L, 4L, 4L, 1L, 1L, 2L, 4L, 4L, 2L, 4L, 4L, 1L, 
    1L), levels = c("201", "203", "207", "208"), class = "factor"), 
    LOC2b = structure(c(1L, 1L, 4L, 4L, 5L, 5L, 4L, 4L, 4L, 4L, 
    4L, 4L, 3L, 5L, 5L, 2L, 4L, 4L, 3L, 3L), levels = c("201", 
    "203", "207", "208", "209"), class = "factor"), LOC3a = structure(c(5L, 
    5L, 2L, 2L, 2L, 2L, 5L, 3L, 3L, 3L, 2L, 2L, 4L, 3L, 3L, 6L, 
    2L, 2L, 1L, 2L), levels = c("-99", "306", "307", "313", "314", 
    "317"), class = "factor"), LOC3b = structure(c(7L, 7L, 5L, 
    5L, 2L, 2L, 5L, 6L, 3L, 3L, 6L, 6L, 6L, 4L, 4L, 7L, 3L, 3L, 
    1L, 6L), levels = c("-99", "306", "307", "313", "314", "317", 
    "318"), class = "factor"), LOC4a = structure(c(2L, 2L, 3L, 
    3L, 4L, 4L, 1L, 5L, 3L, 3L, 1L, 1L, 3L, 5L, 5L, 3L, 1L, 1L, 
    1L, 1L), levels = c("404", "405", "407", "408", "417"), class = "factor"), 
    LOC4b = structure(c(4L, 4L, 1L, 1L, 3L, 3L, 4L, 4L, 4L, 4L, 
    2L, 2L, 4L, 4L, 4L, 4L, 2L, 2L, 2L, 2L), levels = c("407", 
    "413", "414", "417"), class = "factor"), LOC5a = structure(c(4L, 
    4L, 2L, 2L, 1L, 1L, 1L, 5L, 3L, 3L, 2L, 2L, 3L, 2L, 2L, 3L, 
    2L, 2L, 2L, 2L), levels = c("501", "502", "505", "514", "516"
    ), class = "factor"), LOC5b = structure(c(4L, 4L, 1L, 1L, 
    1L, 1L, 2L, 3L, 4L, 4L, 2L, 2L, 4L, 3L, 3L, 4L, 4L, 4L, 4L, 
    4L), levels = c("502", "514", "516", "519"), class = "factor"), 
    LOC6a = structure(c(2L, 2L, 3L, 3L, 2L, 2L, 3L, 2L, 3L, 3L, 
    2L, 2L, 3L, 1L, 1L, 3L, 1L, 1L, 2L, 2L), levels = c("602", 
    "603", "607"), class = "factor"), LOC6b = structure(c(4L, 
    4L, 3L, 3L, 2L, 2L, 4L, 1L, 4L, 4L, 2L, 2L, 4L, 4L, 4L, 3L, 
    1L, 1L, 2L, 2L), levels = c("603", "607", "616", "618"), class = "factor"), 
    LOC7a = structure(c(3L, 3L, 5L, 5L, 2L, 2L, 2L, 6L, 1L, 1L, 
    1L, 1L, 2L, 1L, 1L, 4L, 3L, 3L, 4L, 4L), levels = c("703", 
    "706", "709", "712", "713", "717"), class = "factor"), LOC7b = structure(c(3L, 
    3L, 3L, 3L, 1L, 1L, 3L, 5L, 2L, 2L, 5L, 5L, 5L, 3L, 3L, 3L, 
    4L, 4L, 3L, 3L), levels = c("706", "709", "715", "717", "719"
    ), class = "factor"), LOC8a = structure(c(1L, 1L, 1L, 1L, 
    1L, 1L, 1L, 1L, 1L, 1L, 3L, 3L, 2L, 2L, 2L, 1L, 4L, 4L, 1L, 
    1L), levels = c("804", "811", "812", "816"), class = "factor"), 
    LOC8b = structure(c(5L, 5L, 5L, 5L, 1L, 1L, 3L, 4L, 2L, 2L, 
    5L, 5L, 3L, 5L, 5L, 4L, 5L, 5L, 3L, 3L), levels = c("804", 
    "805", "811", "812", "816"), class = "factor"), LOC9a = structure(c(2L, 
    2L, 3L, 3L, 4L, 4L, 4L, 1L, 4L, 4L, 2L, 2L, 4L, 2L, 2L, 4L, 
    2L, 2L, 2L, 2L), levels = c("907", "911", "912", "914"), class = "factor"), 
    LOC9b = structure(c(2L, 2L, 2L, 2L, 4L, 4L, 2L, 2L, 2L, 2L, 
    1L, 1L, 3L, 2L, 2L, 3L, 2L, 2L, 1L, 1L), levels = c("911", 
    "914", "915", "918"), class = "factor"), LOC10a = structure(c(3L, 
    3L, 2L, 2L, 2L, 2L, 2L, 3L, 3L, 3L, 4L, 4L, 5L, 3L, 3L, 4L, 
    1L, 1L, 4L, 4L), levels = c("1005", "1006", "1007", "1015", 
    "1018"), class = "factor"), LOC10b = structure(c(3L, 3L, 
    3L, 3L, 1L, 1L, 3L, 5L, 3L, 3L, 3L, 3L, 4L, 3L, 3L, 3L, 2L, 
    2L, 4L, 4L), levels = c("1006", "1007", "1015", "1018", "1019"
    ), class = "factor")), row.names = c(NA, -20L), class = "data.frame")