Man pages for mooredf22/protlocassign0p1p1
Compute constrained proportional assignments for fractionated protein abundance
| AcupFromNSA | Set up RSA (relative specific amount) profiles for... |
| AcupFromRSA | Compute relative specific amount from relative amounts in... |
| assignCPAloc | assign proteins to a subcellular location using CPA estimates |
| fCPAone | Carry out constrained proportional assignment for protein i;... |
| fCPAsubsets | Carry out constrained proportional assignment for protein... |
| fitCPA | Carry out constrained proportional assignment on all proteins |
| locationProfileSetup | Set up reference profiles for constrained proportional... |
| markerListJadot | Reference proteins from Jadot et al. (2016) |
| markerProfilePlot | Plot profiles of reference proteins |
| mixtureAreaError | Compute area-based error for mixture of two compartment... |
| mixtureHeatMap | plot mixture of all two compartment profile combinations as... |
| mixturePlot | plot mixture of two compartment profiles |
| mixturePlotPanel | plot mixture of all two compartment profile combinations as... |
| nearestProts | Compute distances between a particular protein or profile and... |
| NSAfromAcup | Compute relative specific amount from relative amounts in... |
| NSAfromRSA | convert RSA to NSA |
| outlierFind | outlierFind to identify outliers in a matrix using both... |
| profileSummarize | protProfileSummarize calculates mean and SE for each channel... |
| protCap | convert single protein name to capitalize first character... |
| proteinDataPrep | The program ensures that spectra are nested within peptides,... |
| proteinMix | compute a mixture of proteins in two compartments |
| protIndex | return index of a protein name, or (if exactMatch=TRUE)... |
| protNSA_AT5tmtMS2 | Protein mean NSA values from the TMT-MS2 data, Expt AT5 |
| protNSA_test | Test data set with marker NSA data and also the TLN1 NSA... |
| protPepNSA_AT5tmtMS2 | profilesProtPepAT5tmtMS2 |
| protPepPlotfun | Plot profiles of reference proteins |
| protPepProfile | put proteins and peptides together |
| protPepProfile.i | combine proteins and peptides; service function for... |
| protPlotfun | Plot profiles of reference proteins |
| refProfilePlot | Plot profiles of reference proteins |
| RSAfromAcup | Compute relative specific amount from relative amounts in... |
| RSAfromNSA | Directly compute relative specific activity from... |
| spectraNSA_AT5tmtMS2 | Profiles for proteins, peptides, and spectra |
| totProtAT5 | totProtAT5 |
| vectorizeAll | normalize all rows of a matrix to have unit length |
| vecUnitize | normalize vector xx to have unit length |
