makeDesign | R Documentation |
This function will aid in making a design file for an imaging experiment (design.csv).
makeDesign(
proj,
n.plate,
n.row = 8,
n.col = 12,
assay.type = NULL,
food = NULL,
od = NULL
)
proj |
The name of the project this design file will be used for. Remember that the project name always
follows the 8-digit date in project directories. For example, the project directory |
n.plate |
The number of plates in the experiment. |
n.row |
The number of rows in the plates. Default is 8 for a 96-well plate. |
n.col |
The number of columns in the plates. Default is 12 for a 96-well plate. |
assay.type |
OPTIONAL: The type of assay run. For example, "48h". |
food |
OPTIONAL: A character description of the food used to perform the assay. For example, "15hHB101_20220727". |
od |
OPTIONAL: The final optical density of bacterial food used in the assay. For example, 10. |
The variables output are as follows:
Variables | Class |
Metadata_Experiment | chr |
Metadata_Plate | chr |
Metadata_Well | chr |
strain | chr |
drug | chr |
concentration_um | dbl |
bleach | chr |
diluent | chr |
assay_type | chr |
plate | dbl |
row | chr |
col | chr |
food | chr |
od | int |
well_censor | chr |
well_censor_reason | chr |
notes | chr |
A single data frame with the variables "Metadata_Plate"
and "Metadata_Well"
variables that can be used
as a design file for the readXpress
function. The data frame can be augmented further to include specific drugs and dilutents
or other experimental design attributes if desired. The variables output include:
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