Softmax-Platereader-Functions

Functions for reading in data from the SoftMax software for a 96 well plate.

How to:

Open R script and copy from protein-bca-standcurve.R:

library(RCurl)

Upload and run the latest version of softmax reader functions:

script <- getURL("https://raw.githubusercontent.com/bertrand-lab/Softmax-Platereader-Functions/master/Softmax%20Platereader%20Functions.R", ssl.verifypeer = FALSE)

eval(parse(text = script))

Open project in working directory (or set working directory). Edit out top and bottom lines from txt file. Create sample map.

Run:

finale_wrapper(sample_map = "", softmax_file = "", dilution_factor = 20)

To Do:

• Figure out how to not have to edit the top and bottom lines from softmax pro output.
• Improve functions defensibility.
• Put fitted model into plot output.
• Finish function descriptions docs below.

Function Descriptions:

plate_input_96()

• Reads in data from a .txt file exported from SoftMax
• Converts the columns and row names to the appropriate headings (A, B, C, etc.) and (1-8).

tidy_plate()

• Converts the above object into a tidy dataframe, where observations correspond to a well ID and an absorbance value
• Specifically written for working with the package {plater}

plate_load()

• Wrapper function including the two above.
• Also requires another file, the "sample map". This conforms to the format fromt {plater}, where the treatments applied to each well are put in a .csv file representing a 96 well plate.
• The read-in absorbance data is then merged with the sample map, all in a tidy data frame.