Stitch Field Coordinates

stitchFieldCoordinates()

Helper function to stitch field coordinates together to form one complete picture.

stitchFieldCoordinates(
    location_file,
    offset_file,
    cumulate_offset_x = F,
    cumulate_offset_y = F,
    field_col = "Field of View",
    X_coord_col = "X",
    Y_coord_col = "Y",
    reverse_final_x = F,
    reverse_final_y = T
)

Arguments

location_file	location dataframe with X and Y coordinates
offset_file	dataframe that describes the offset for each field (see details)
cumulate_offset_x	(boolean) Do the x-axis offset values need to be cumulated?
cumulate_offset_y	(boolean) Do the y-axis offset values need to be cumulated?
field_col	column that indicates the field within the location_file
X_coord_col	column that indicates the x coordinates
Y_coord_col	column that indicates the x coordinates
reverse_final_x	(boolean) Do the final x coordinates need to be reversed?
reverse_final_y	(boolean) Do the final y coordinates need to be reversed?

Value

Updated location dataframe with new X [X_final] and Y [Y_final] coordinates

Details

Stitching of fields:

1. Have cell locations: at least 3 columns: field, X, Y

2. Create offset file: offset file has 3 columns: field, x_offset, y_offset

3. Create new cell location file by stitching original cell locations with stitchFieldCoordinates

4. Provide new cell location file to createGiottoObject