plot2dTppFit: Plot H0 or H1 fit of 2D thermal profile intensities of a...

In nkurzaw/TPP2D: Detection of ligand-protein interactions from 2D thermal profiles (DLPTP)

Plot H0 or H1 fit of 2D thermal profile intensities of a protein of choice

Description

Plot H0 or H1 fit of 2D thermal profile intensities of a protein of choice

Usage

plot2dTppFit(
  df,
  name,
  model_type = "H0",
  optim_fun = .min_RSS_h0,
  optim_fun_2 = NULL,
  maxit = 500,
  xlab = "-log10(conc.)",
  ylab = "log2(summed intensities)",
  dot_size = 1,
  line_type = "solid",
  fit_color = "gray30"
)

Arguments

df	tidy data frame of a 2D-TPP dataset
name	gene name (clustername) of protein that should be visualized
model_type	character string indicating whether the "H0" or the "H1" model should be fitted
optim_fun	optimization function that should be used for fitting either the H0 or H1 model
optim_fun_2	optional additional optimization function that will be run with paramters retrieved from optim_fun and should be used for fitting the H1 model with the trimmed sum model, default is NULL
maxit	maximal number of iterations the optimization should be given, default is set to 500
xlab	character string of x-axis label of plot
ylab	character string of y-axis label of plot
dot_size	numeric indicating the size of the data points to plot
line_type	character string defining the line type of the fitted curve, default "dashed"
fit_color	character string defining the color of the fitted curve

Value

A ggplot displaying the thermal profile of a protein of choice in a datset of choice

Examples

data("simulated_cell_extract_df")
plot2dTppProfile(simulated_cell_extract_df, "protein1")

nkurzaw/TPP2D documentation built on May 9, 2023, 10:04 a.m.