InflectSSP {InflectSSP}

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

Description

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

Usage

InflectSSP(
  Directory,
  NControl,
  NCondition,
  PSM,
  UP,
  CurveRsq,
  PValMelt,
  PValMeltFDR,
  MeltLimit,
  RunSTRING,
  STRINGScore,
  Species
)

Arguments

Directory

the directory where the source data files to be analyzed are saved. This is also the location where the results will be saved.

NControl

the number of Control replicate experiments that are to be analyzed

NCondition

the number of Condition replicate experiments that are to be analyzed

PSM

the number of peptide spectrum matches that are deemed acceptable for reporting

UP

the number of unique peptides for a protein that are deemed acceptable for reporting

CurveRsq

Coefficient of determination criteria for melt curves

PValMelt

p-value criteria for melt shifts

PValMeltFDR

Whether or not the FDR correction for pvalue is used in designation of melts of interest

MeltLimit

the melt shift temperature limit used for determining which proteins to report as significant

RunSTRING

whether or not the STRING function will be run or not in the analysis

STRINGScore

the score to be used in the STRING analysis

Species

species number for bioinformatics search

Value

the proteins that have significant melt shifts from an experiment

Examples

## Not run: 
     Directory<-'/Users/Einstein'
     NControl<-2
     NCondition<-3
     PSM<-2
     UP<-3
     CurveRsq<-.95
     PValMelt<-0.05
     PValMeltFDR<-"No"
     MeltLimit<-3
     RunSTRING<-"Yes"
     STRINGScore<-0.99
     Species<-9606
     InflectSSP(Directory,NControl,
     NCondition,PSM,UP,CurveRsq,PValMelt,PValMeltFDR,
     MeltLimit,RunSTRING,STRINGScore,
     Species)
     
## End(Not run)