Man pages for wrTopDownFrag
Internal Fragment Identification from Top-Down Mass Spectrometry
| AAfragSettings | Settings For AA Fragmentation |
| addMassModif | Add Modifications To Peptide Mass |
| checkModTy | Check & complete mixed of variable and fixed modifications |
| combinateAllAndSum | Full Combinatorial And Cumulative Values |
| combinatIntTable | Planing For Making All Multiplicative Combinations |
| corInDelShift | Corrective Values For Random Sequences For In/Dels |
| corMutShift | Corrective Values For Random Sequences For Mutations |
| countChildrenParent | Identify Children/Parent Settings As a+b=c |
| countPotModifAAs | Make Table With Counts of Potential Modification Sites |
| dot-chargeCatchingAA | Cite Charge Catching Amino-Acids |
| dot-chColNa | Check Column Names from Matrix Or data.frame |
| dot-checkModTy | Check Modification Type |
| dot-countLET | Count Letters |
| dot-countModif | Count For All Proteins The Occurance Of Modification Types |
| dot-CtermPepCut | Make Named Character Vector Of Sequential C-Terminal... |
| dot-evalIsoFra | Evaluate Selected Lines Of PepTab |
| dot-exNamesTyDeList | Reorganize List Of Peptide Fragments To Matrix |
| dot-multMatByColNa | Multiply Values Of Matrix By Its Colnames And Sum By Row |
| dot-NtermPepCut | Make Named Character Vector Of Sequential C-Terminal... |
| dot-parCombinateAllAndSum | Multiprocessor Version For Full Combinatorial And Cumulative... |
| dot-prefFragPattern | Return data.frame with pattern of perferential fragmentation... |
| dot-singleSpecModif | Add Single Specific Modifications |
| dot-termPepCut | Make Named Character Vector Of Sequential Terminal Fragments |
| evalIsoFragm | Evaluate Selected Lines Of PepTab (iso-mass) For Preferential... |
| fragmentSeq | Fragment Protein Or Peptide Sequence |
| identifFixedModif | Identify Fixed Modifications |
| identifVarModif | Idenitfy Variable Modifications |
| identifyPepFragments | Identify terminal and internal protein/peptide-fragments as... |
| makeFragments | Make Terminal And Internal Fragments From Proteins |
| modifFragmTabOutput | Change fragment identification output format (for biologists) |
| plotFragmLoc | Plot Identified Fragments Relative To Their Location |
| plotMgfLike | Draw simplified (deconvoluted) spectrum of mgf type and... |
| plotNTheor | Plot the number of theoretical random fragments |
| plotPrefFragPat | plot preferential fragmenation pattern Plot preferential... |
| randMassByMut | Make decoy mass by full randomization |
| randMassByStochastic | Make Decoy Mass By Full Randomization |
| scoreChargeCatch | Scoring Of Charge Catching Potential For Peptides |
| scoreFragments | Scoring For Single Protein : Individual Components |
| scorePrefFrag | Identifcation and scoring of preferential cuting sites |
| scoreProteinFragments | Scoring Of Identifications (For Multi-Protein Queries) |
