InflectSSP (version 1.5)

Melt Curve Fitting and Melt Shift Analysis

Description

Analyzes raw abundance data from a cellular thermal shift experiment and calculates melt temperatures and melt shifts for each protein in the experiment. McCracken (2022) .

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Version

Install

install.packages('InflectSSP')

Monthly Downloads

757

Version

1.5

License

GPL-2

Maintainer

Amber Mosley

Last Published

February 3rd, 2023

Functions in InflectSSP (1.5)

ReportDataMelts

This function generates results from the Inflect function after applying criteria input from the user

Correction

This function corrects the normalized abundance of each protein using a correction constant that is calculated in this function. The correction constant is determined using the difference between actual and predicted fit at the proteome level.

CurveFit1

This function determines the 4 parameter or 3 parameter log fit for the proteome level curve.

ReportSTRING

This function generates a STRING based network using the significant melt shifts from analysis

InflectSSP

This function is the primary function that calls other functions in the program.

MeltCalc

This function determines melt shifts for all proteins that meet quality criteria and also determines the melt shift p-values

CurveFit2

This function determines the best curve fit for each protein using the data post correction and also determines the R squared for each curve fit

Quantify

This function determines the median abundance value across the proteome for all experiments together

Normalize

This function normalizes the abundance values to that measured at the lowest temperature

Import

This function imports data that will be analyzed in downstream functions.