Description Usage Arguments Value Examples
Neighborless algorithm detects the pinning error of a plate by first excluding the empty indices and then checks for colony area. If the colony area is zero, then the algorithm concludes it as one of excluded colonies.
1 2 | neighborless_algorithm(plateformat, colony_area_raw_data, empty_indices,
excluded_colonies, is_save = FALSE, excluded_file = NULL)
|
plateformat |
An integer which can be one of 96 or 384 or 1536. |
colony_area_raw_data |
A numeric vector of raw data representing the area yeast grown at a specific location on a nutrient medium agar plate. The data can be either rowwise or columnwise and its arrangement does not influence the outcome of this algorithm. |
empty_indices |
A numeric vector of indexed empty locations. It can also be the indices of control colonies grown on a plate, which may be used for normalizing the colony area of a plate |
excluded_colonies |
A numeric vector of indices that are part of excluded colonies |
is_save |
logical. If |
excluded_file |
If |
Invisible numeric vector of excluded colonies from neighborless algorithm.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 | plateformat <- 1536
data_area <- simulated_data_1536(data_384 = colonyarea$data_subtypes,
in_data_flow = "across",
out_data_flow = "down",
is_plate_coords = TRUE)
empty_indices <- which(convert_small_to_large(plate_from = 384,
plate_to = 1536,
data_from = colonyarea$data_subtypes,
in_data_flow = 'across',
out_data_flow = "down",
is_plate_coords = FALSE)$y %in% 'Empty')
(neighborless_algorithm(plateformat = 1536,
colony_area_raw_data = data_area$y,
empty_indices = empty_indices,
excluded_colonies = c(),
is_save = FALSE,
excluded_file = NULL))
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