API for pheno2geno
High-Throughput Generation of Genetic Markers and Maps from Molecular Phenotypes for Crosses Between Inbred Strains
| Global functions | |
|---|---|
| add.to.population | Man page Source code |
| add.to.populationSub.internal | Man page Source code |
| add.to.populationSubAnnots.internal | Man page Source code |
| add.to.populationSubGeno.internal | Man page Source code |
| add.to.populationSubMap.internal | Man page Source code |
| add.to.populationSubPheno.internal | Man page Source code |
| analyseLineVariance | Man page Source code |
| applyFunctionToFile | Man page Source code |
| ascendingMaptoJigSawMap | Man page Source code |
| assignChrToMarkers | Man page Source code |
| assignLinkageGroups | Man page Source code |
| assignMaximum | Man page Source code |
| assignMaximumNoConflicts | Man page Source code |
| avg_map_distances | Man page Source code |
| bestCorelated.internal | Man page Source code |
| bestCorelatedSub.internal | Man page Source code |
| bestQTL.internal | Man page Source code |
| bestQTLSub.internal | Man page Source code |
| check.population | Man page Source code |
| checkAndBind | Man page Source code |
| checkForEpistasis | Man page Source code |
| chromosomesLengths.internal | Man page Source code |
| cleanGeno.internal | Man page Source code |
| cleanNames.internal | Man page Source code |
| cleanRfs | Man page Source code |
| coloringMode | Man page |
| convertMap.internal | Man page Source code |
| convertType.internal | Man page Source code |
| create.population | Man page Source code |
| createMix | Man page Source code |
| createMix.test | Man page Source code |
| cross.denovo | Man page Source code |
| cross.denovo.internal | Man page Source code |
| cross.saturate | Man page Source code |
| dataObject | Man page |
| dataType | Man page |
| defaultCheck.internal | Man page Source code |
| doCleanUp.internal | Man page Source code |
| donothing | Man page Source code |
| fake.population | Man page Source code |
| fakeFounders.internal | Man page Source code |
| fakeMixUps.internal | Man page Source code |
| fakePheno.internal | Man page Source code |
| fakePhysicalMap.internal | Man page Source code |
| filterRow.internal | Man page Source code |
| find.diff.expressed | Man page Source code |
| find.mixups | Man page Source code |
| findUsingTTest.internal | Man page Source code |
| fullScanRow.internal | Man page Source code |
| generate.biomarkers | Man page Source code |
| generate.biomarkers.internal | Man page Source code |
| genotypeCheck.internal | Man page Source code |
| genotypesToCross.internal | Man page Source code |
| getChrOffsets.internal | Man page Source code |
| getChromosome.internal | Man page Source code |
| getMarkerOffsets | Man page Source code |
| getMarkerOffsets.internal | Man page |
| getMarkerOffsetsFromMap | Man page Source code |
| getPopulationOffsets.internal | Man page Source code |
| getYLocs.internal | Man page Source code |
| getpeaks.internal | Man page Source code |
| groupLabels | Man page |
| inListCheck.internal | Man page |
| inRangeCheck.internal | Man page |
| insertMarkers.internal | Man page Source code |
| invertChromosome.internal | Man page Source code |
| is.integer0 | Man page Source code |
| logarithmic | Man page |
| lowerTrng.internal | Man page Source code |
| majorityCorrelation | Man page Source code |
| majorityOfMarkers | Man page Source code |
| makeChromPal.internal | Man page Source code |
| makeHaplos.internal | Man page Source code |
| map2mapCorrelationMatrix | Man page Source code |
| map2mapImage | Man page Source code |
| mapMarkers.internal | Man page Source code |
| map_distances | Man page Source code |
| margin | Man page |
| markerPlacementPlot | Man page Source code |
| markers | Man page |
| markersCorPlot | Man page Source code |
| matchMarkers | Man page Source code |
| meanCorrelation | Man page Source code |
| mergeChromosomes.internal | Man page Source code |
| mergeEnv.internal | Man page Source code |
| mergeInverted | Man page Source code |
| mlog | Man page Source code |
| mlogit | Man page Source code |
| mprobit | Man page Source code |
| msqrt | Man page Source code |
| normalModeReading | Man page Source code |
| numericCheck.internal | Man page Source code |
| overlapInd | Man page |
| pheno2geno | Man page |
| phenotypeRow | Man page |
| plot4Nmixture | Man page Source code |
| plotChildrenExpression | Man page Source code |
| plotMapComparison | Man page Source code |
| plotMarkerDistribution | Man page Source code |
| plotParentalExpression | Man page Source code |
| plotRPpval | Man page Source code |
| population | Man page |
| power.plot | Man page Source code |
| print.population | Man page Source code |
| printGeno.internal | Man page Source code |
| processInteractions | Man page Source code |
| projectOldMarkers | Man page Source code |
| proportion | Man page |
| pull.biomarkers | Man page Source code |
| qtl.comparison.plot | Man page Source code |
| read.population | Man page Source code |
| readSingleFile | Man page Source code |
| rearrangeMarkers | Man page Source code |
| reciproce | Man page Source code |
| reduceChromosomesNumber | Man page Source code |
| removeChromosomes | Man page Source code |
| removeChromosomesSub.internal | Man page Source code |
| removeTooSmallChromosomes | Man page Source code |
| reorganizeMarkersWithin | Man page Source code |
| save.gff | Man page Source code |
| scan.qtls | Man page Source code |
| scoreMixups.internal | Man page Source code |
| selectByLine | Man page Source code |
| selectByLineApply | Man page Source code |
| selectChr | Man page Source code |
| selectPhenotypes | Man page Source code |
| selectTopMarker.internal | Man page Source code |
| set.geno.from.cross | Man page Source code |
| showRPpval | Man page Source code |
| simBC.internal | Man page Source code |
| simulateParentalPhenotypes | Man page Source code |
| splitPheno.Apply | Man page Source code |
| splitPheno.internal | Man page Source code |
| splitPhenoRowEM.internal | Man page Source code |
| sumMajorityCorrelation | Man page Source code |
| switchChromosomes.internal | Man page Source code |
| tTestByLine | Man page Source code |
| tTestByLineApply | Man page Source code |
| testCross | Man page |
| testPopulation | Man page |
| transformation | Man page Source code |
| twoGenosModel | Man page Source code |
| write.population | Man page Source code |
| writeGenotypes.internal | Man page Source code |
| writePhenotypes.internal | Man page Source code |
| writeSingleFile | Man page Source code |
