Function reference • fpcountr

Calibration functions

process_absorbance_spectrum(): Process absorbance spectrum data

get_conc_ecmax(): Get FP concentrations using ECmax method

generate_cfs(): Generate conversion factors for FP calibrations

Experimental data analysis functions

process_plate(): Process experimental data (normalise, correct and calibrate)

calc_fppercell(): Calculate FP per cell values

calc_fpconc(): Calculate FP concentration in molar units

Parser functions

Functions that extract and tidy data

parse_magellan(): Parse Tecan Spark/Magellan data from endpoint and kinetic assays

parse_magellan_spectrum(): Parse Tecan Spark/Magellan data from absorbance spectrum data

Path length functions

Functions that determine path lengths for absorbance measurements

view_kfactors(): View k-factors

get_kfactor(): Get k-factor of a buffer

get_pathlength(): Get path length in a typical 96-well plate

Protein property functions

Functions that find protein properties

get_mw(): Get molecular weight of a protein

get_extcoeff_a280(): Get a protein's molar extinction coefficient at A280

get_fpbase_properties(): Get properties of an FP from FPbase

Plate format functions

Functions to generate row, column and well names

find_wells(): Find wells of a given plate format

find_wells_in_row(): List of all wells in a specific row of a given plate type

find_wells_in_column(): List of all wells in a specific column of a given plate type

find_wells_in_rowcolumn(): List of all wells in specific rows and columns of a given plate type

Metadata functions

save_metadata_template(): Save a template metadata file

Data

aa_mass_data: Amino acid masses

cell_quench_data: cell quench data

fpbase_data: fluorescent protein properties from fpbase

kfactors_buffers_data: k-factors of different buffers

kfactors_temperature_data: k-factors of water at different temperatures

pathlength_water_data: pathlength vs volume data

protein_seq_data: protein sequence data

Optional calibration functions

For use with protein concentration determination methods other than the ECmax assay. However, these methods are not recommended in most cases.

get_conc_a280(): Get FP concentrations using A280 method

get_conc_bca(): Get FP concentrations using bicinchoninic acid (BCA) assay method