candidateRelocatedProteins {SubCellBarCode} | R Documentation |
Identify candidate condition-dependent relocated proteins by comparing neighborhood classifications with respect to protein-protein pearson correlation and minumum PSM, peptide spectrum matching, count.
candidateRelocatedProteins(sampleCls1, s1PSM, s1Quant, sampleCls2, s2PSM, s2Quant, annotation = FALSE, min.psm = 2, pearson.cor = 0.8)
sampleCls1 |
data.frame; merged classification, combination of compartment and neighborhood classification. |
s1PSM |
data.frame; minimum PSM count table across ten TMT channel |
s1Quant |
data.frame; fractionation quantification data |
sampleCls2 |
data.frame; merged classification, combination of compartment and neighborhood classification. |
s2PSM |
data.frame; minimum PSM count table across ten TMT channel |
s2Quant |
data.frame; fractionation quantification data |
annotation |
boolean; labeling the selected proteins |
min.psm |
numeric; minimum psm, peptide spectra matching value |
pearson.cor |
numeric; pearson correlation threshold |
candidate.df
{ candidate.df <- candidateRelocatedProteins(hcc827GEFClass, hcc827GefPSMCount, hcc827GEF, hcc827GEFClass, hcc827GefPSMCount, hcc827GEF, annotation = FALSE) }