Estimation of Meiotic Recombination Rates Using Marey Maps
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Documentation for package ‘MareyMap’ version 1.3.7
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A C D G H I L M N P Q R S T U V misc
-- A --
| Arabidopsis_thaliana | The marey map for the species Arabidopsis thaliana |
| argList | Methods for function argList in package 'MareyMap' |
| argList-method | Class "Interpolation" |
| argList-methods | Methods for function argList in package 'MareyMap' |
-- C --
| Caenorhabditis_elegans | The marey map for the species Caenorhabditis_elegans |
| coerce-method | Class "MapCollection" |
| coerce-method | Class "MareyMap" |
| coerce-method | Class "MapSet" |
| color | Accessors for slot color in package 'MareyMap' |
| color-method | Class "Interpolation" |
| color-methods | Accessors for slot color in package 'MareyMap' |
| color<- | Accessors for slot color in package 'MareyMap' |
| color<--method | Class "Interpolation" |
| color<--methods | Accessors for slot color in package 'MareyMap' |
| createOrder | createOrder |
| createOrder-method | Class "MMLoess". Interpolation method plug-in for MareyMap |
| createOrder-method | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| createOrder-method | Class "MMSpline3" Interpolation using cubic splines |
| createOrder-methods | createOrder |
-- D --
| degree | Class "MMLoess". Interpolation method plug-in for MareyMap |
| degree-method | Class "MMLoess". Interpolation method plug-in for MareyMap |
| degree<- | Class "MMLoess". Interpolation method plug-in for MareyMap |
| degree<--method | Class "MMLoess". Interpolation method plug-in for MareyMap |
| df | Class "MMSpline3" Interpolation using cubic splines |
| df-method | Class "MMSpline3" Interpolation using cubic splines |
| df<- | Class "MMSpline3" Interpolation using cubic splines |
| df<--method | Class "MMSpline3" Interpolation using cubic splines |
| Drosophila_melanogaster | The marey map for the species Drosophila melanogaster |
-- G --
| gcv | Class "MMSpline3" Interpolation using cubic splines |
| gcv-method | Class "MMSpline3" Interpolation using cubic splines |
| gcv<- | Class "MMSpline3" Interpolation using cubic splines |
| gcv<--method | Class "MMSpline3" Interpolation using cubic splines |
| geneticDistances | Accessors for slot geneticDistances |
| geneticDistances-method | Class "MareyMap" |
| geneticDistances-methods | Accessors for slot geneticDistances |
| geneticDistances<- | Accessors for slot geneticDistances |
| geneticDistances<--method | Class "MareyMap" |
| geneticDistances<--methods | Accessors for slot geneticDistances |
| getInterList | returns a list of interpolation methods. |
| getInterList-method | returns a list of interpolation methods. |
| getInterList-methods | returns a list of interpolation methods. |
-- H --
| Homo_sapiens_female | The marey map for the species Homo sapiens (female, male and mean of the two) |
| Homo_sapiens_male | The marey map for the species Homo sapiens (female, male and mean of the two) |
| Homo_sapiens_mean | The marey map for the species Homo sapiens (female, male and mean of the two) |
-- I --
| interpolate | interpolate |
| interpolate-method | Class "Interpolation" |
| interpolate-method | Class "MMLoess". Interpolation method plug-in for MareyMap |
| interpolate-method | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| interpolate-method | Class "MMSpline3" Interpolation using cubic splines |
| interpolate-methods | interpolate |
| Interpolation | Class "Interpolation" |
| interpolation | set or returns an interpolation. |
| Interpolation-class | Class "Interpolation" |
| interpolation-method | Class "MareyMap" |
| interpolation-methods | set or returns an interpolation. |
| interpolation<- | set or returns an interpolation. |
| interpolation<--method | Class "MareyMap" |
| interpolation<--methods | set or returns an interpolation. |
| InterpolationParam | Class "InterpolationParam" |
| InterpolationParam-class | Class "InterpolationParam" |
| InterpolationParam-method | Methods for Function InterpolationParam in Package 'MareyMap' |
| InterpolationParam-methods | Methods for Function InterpolationParam in Package 'MareyMap' |
| interpolations | accessors for slot interpolations |
| interpolations-method | Class "MareyMap" |
| interpolations-methods | accessors for slot interpolations |
| interpolations<- | accessors for slot interpolations |
| interpolations<--method | Class "MareyMap" |
| interpolations<--methods | accessors for slot interpolations |
-- L --
| length-method | Class "MapCollection" |
| length-method | Class "MapSet" |
-- M --
| MapCollection | Class "MapCollection" |
| MapCollection-class | Class "MapCollection" |
| MapCollection-method | Class "MapCollection" |
| MapCollection-methods | Constructor for class MapCollection |
| mapName | accessors for the slot mapName |
| mapName-method | Class "MareyMap" |
| mapName-methods | accessors for the slot mapName |
| mapName<- | accessors for the slot mapName |
| mapName<--method | Class "MareyMap" |
| mapName<--methods | accessors for the slot mapName |
| mapNames | mapNames |
| mapNames-method | Class "MapSet" |
| mapNames-methods | mapNames |
| MapSet | Class "MapSet" |
| MapSet-class | Class "MapSet" |
| MapSet-method | Constructor for the class MapSet. |
| MapSet-methods | Constructor for the class MapSet. |
| MareyMap | Class "MareyMap" |
| MareyMap-class | Class "MareyMap" |
| MareyMap-method | Class "MareyMap" |
| MareyMap-method | Constructor for object of the class MareyMap. |
| MareyMap-methods | Constructor for object of the class MareyMap. |
| markerNames | Accessors for the class markerNames. |
| markerNames-method | Class "MareyMap" |
| markerNames-methods | Accessors for the class markerNames. |
| markerNames<- | Accessors for the class markerNames. |
| markerNames<--method | Class "MareyMap" |
| markerNames<--methods | Accessors for the class markerNames. |
| markerValidity | accessors for slot markerValidity |
| markerValidity-method | Class "MareyMap" |
| markerValidity-methods | accessors for slot markerValidity |
| markerValidity<- | accessors for slot markerValidity |
| markerValidity<--method | Class "MareyMap" |
| markerValidity<--methods | accessors for slot markerValidity |
| MMLoess | Class "MMLoess". Interpolation method plug-in for MareyMap |
| MMLoess-class | Class "MMLoess". Interpolation method plug-in for MareyMap |
| MMLoess-method | Class "MMLoess". Interpolation method plug-in for MareyMap |
| MMLoess-methods | Class "MMLoess". Interpolation method plug-in for MareyMap |
| MMSlidingWindow | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| MMSlidingWindow-class | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| MMSlidingWindow-method | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| MMSlidingWindow-methods | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| MMSpline3 | Class "MMSpline3" Interpolation using cubic splines |
| MMSpline3-class | Class "MMSpline3" Interpolation using cubic splines |
| MMSpline3-method | Class "MMSpline3" Interpolation using cubic splines |
| MMSpline3-methods | Class "MMSpline3" Interpolation using cubic splines |
-- N --
| name | Accessor for slot name. |
| name-method | Class "Interpolation" |
| name-methods | Accessor for slot name. |
| name<- | Accessor for slot name. |
| name<--method | Class "Interpolation" |
| name<--methods | Accessor for slot name. |
-- P --
| paramDefault | Accessors for slot paramDefault |
| paramDefault-method | Class "InterpolationParam" |
| paramDefault-methods | Accessors for slot paramDefault |
| paramDefault<- | Accessors for slot paramDefault |
| paramDefault<--method | Class "InterpolationParam" |
| paramDefault<--methods | Accessors for slot paramDefault |
| paramDesc | Accessors for the slot paramDesc |
| paramDesc-method | Class "InterpolationParam" |
| paramDesc-methods | Accessors for the slot paramDesc |
| paramDesc<- | Accessors for the slot paramDesc |
| paramDesc<--method | Class "InterpolationParam" |
| paramDesc<--methods | Accessors for the slot paramDesc |
| paramFun | accessors for the slot paramFun |
| paramFun-method | Class "InterpolationParam" |
| paramFun-methods | accessors for the slot paramFun |
| paramFun<- | accessors for the slot paramFun |
| paramFun<--method | Class "InterpolationParam" |
| paramFun<--methods | accessors for the slot paramFun |
| paramMax | Accessors for the slot paramMax. |
| paramMax-method | Class "InterpolationParam" |
| paramMax-methods | Accessors for the slot paramMax. |
| paramMax<- | Accessors for the slot paramMax. |
| paramMax<--method | Class "InterpolationParam" |
| paramMax<--methods | Accessors for the slot paramMax. |
| paramMin | Accessors for slot paramMin. |
| paramMin-method | Class "InterpolationParam" |
| paramMin-methods | Accessors for slot paramMin. |
| paramMin<- | Accessors for slot paramMin. |
| paramMin<--method | Class "InterpolationParam" |
| paramMin<--methods | Accessors for slot paramMin. |
| paramName | Accessors for the slot paramName. |
| paramName-method | Class "InterpolationParam" |
| paramName-methods | Accessors for the slot paramName. |
| paramName<- | Accessors for the slot paramName. |
| paramName<--method | Class "InterpolationParam" |
| paramName<--methods | Accessors for the slot paramName. |
| paramType | Accessors for the slot paramType. |
| paramType-method | Class "InterpolationParam" |
| paramType-methods | Accessors for the slot paramType. |
| paramType<- | Accessors for the slot paramType. |
| paramType<--method | Class "InterpolationParam" |
| paramType<--methods | Accessors for the slot paramType. |
| paramValues | Accessor for the slot paramValues. |
| paramValues-method | Class "InterpolationParam" |
| paramValues-methods | Accessor for the slot paramValues. |
| paramValues<- | Accessor for the slot paramValues. |
| paramValues<--method | Class "InterpolationParam" |
| paramValues<--methods | Accessor for the slot paramValues. |
| persistent | Accessors for the slot persistent. |
| persistent-method | Class "Interpolation" |
| persistent-methods | Accessors for the slot persistent. |
| persistent<- | Accessors for the slot persistent. |
| persistent<--method | Class "Interpolation" |
| persistent<--methods | Accessors for the slot persistent. |
| physicalPositions | Accessors for the slot physicalPositions |
| physicalPositions-method | Class "MareyMap" |
| physicalPositions-methods | Accessors for the slot physicalPositions |
| physicalPositions<- | Accessors for the slot physicalPositions |
| physicalPositions<--method | Class "MareyMap" |
| physicalPositions<--methods | Accessors for the slot physicalPositions |
| plot-method | Class "Interpolation" |
| plot-method | Class "MMLoess". Interpolation method plug-in for MareyMap |
| plot-method | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| plot-method | Class "MMSpline3" Interpolation using cubic splines |
| plot-method | Class "MareyMap" |
| plotMarkers | plotMarkers |
| plotMarkers-method | Class "MareyMap" |
| plotMarkers-methods | plotMarkers |
| plotModel | plotModel |
| plotModel-method | Class "Interpolation" |
| plotModel-method | Class "MMLoess". Interpolation method plug-in for MareyMap |
| plotModel-method | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| plotModel-method | Class "MMSpline3" Interpolation using cubic splines |
| plotModel-methods | plotModel |
| plotModels | plotModels |
| plotModels-method | Class "MareyMap" |
| plotModels-methods | plotModels |
| plotRate | plotRate |
| plotRate-method | Class "Interpolation" |
| plotRate-method | Class "MMLoess". Interpolation method plug-in for MareyMap |
| plotRate-method | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| plotRate-method | Class "MMSpline3" Interpolation using cubic splines |
| plotRate-methods | plotRate |
| plotRates | plotRates |
| plotRates-method | Class "MareyMap" |
| plotRates-methods | plotRates |
-- Q --
| query | Methods for Function query |
| query-method | Class "Interpolation" |
| query-method | Class "MMLoess". Interpolation method plug-in for MareyMap |
| query-method | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| query-method | Class "MMSpline3" Interpolation using cubic splines |
| query-method | Class "MareyMap" |
| query-methods | Methods for Function query |
-- R --
| rates | Accessors for the slot rates |
| rates-method | Class "Interpolation" |
| rates-methods | Accessors for the slot rates |
| rates<- | Accessors for the slot rates |
| rates<--method | Class "Interpolation" |
| rates<--methods | Accessors for the slot rates |
| registerInterpolationMethod | registerInterpolationMethods |
| registerInterpolationMethod-method | registerInterpolationMethods |
| registerInterpolationMethod-methods | registerInterpolationMethods |
| removeMarker | removeMarker |
| removeMarker-method | Class "MareyMap" |
| removeMarker-methods | removeMarker |
-- S --
| setName | Accessors for the slot setName. |
| setName-method | Class "MareyMap" |
| setName-method | Class "MapSet" |
| setName-methods | Accessors for the slot setName. |
| setName<- | Accessors for the slot setName. |
| setName<--method | Class "MareyMap" |
| setName<--method | Class "MapSet" |
| setName<--methods | Accessors for the slot setName. |
| setNames | setNames |
| setNames-method | Class "MapCollection" |
| setNames-methods | setNames |
| shift | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| shift-method | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| shift<- | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| shift<--method | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| size | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| size-method | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| size<- | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| size<--method | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| span | Class "MMLoess". Interpolation method plug-in for MareyMap |
| span-method | Class "MMLoess". Interpolation method plug-in for MareyMap |
| span<- | Class "MMLoess". Interpolation method plug-in for MareyMap |
| span<--method | Class "MMLoess". Interpolation method plug-in for MareyMap |
| spar | Class "MMSpline3" Interpolation using cubic splines |
| spar-method | Class "MMSpline3" Interpolation using cubic splines |
| spar<- | Class "MMSpline3" Interpolation using cubic splines |
| spar<--method | Class "MMSpline3" Interpolation using cubic splines |
| startMareyMapGUI | MareyMapGUI launcher |
| startMareyMapGUI-method | MareyMapGUI launcher |
| startMareyMapGUI-methods | MareyMapGUI launcher |
-- T --
| textFile | textFile |
| textFile-method | Class "MapCollection" |
| textFile-method | Class "MareyMap" |
| textFile-method | Class "MapSet" |
| textFile-methods | textFile |
| threshold | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| threshold-method | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| threshold<- | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| threshold<--method | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| type | Class "MMSpline3" Interpolation using cubic splines |
| type-method | Class "MMSpline3" Interpolation using cubic splines |
| type<- | Class "MMSpline3" Interpolation using cubic splines |
| type<--method | Class "MMSpline3" Interpolation using cubic splines |
-- U --
| userParam | userParam |
| userParam-method | Class "Interpolation" |
| userParam-method | Class "MMLoess". Interpolation method plug-in for MareyMap |
| userParam-method | Class "MMSlidingWindow" Interpolation method plug-in for MareyMap |
| userParam-method | Class "MMSpline3" Interpolation using cubic splines |
| userParam-methods | userParam |
-- V --
| validPositions | validPositions |
| validPositions-method | Class "MareyMap" |
| validPositions-methods | validPositions |
| visible | Accessors for the slot visible |
| visible-method | Class "Interpolation" |
| visible-methods | Accessors for the slot visible |
| visible<- | Accessors for the slot visible |
| visible<--method | Class "Interpolation" |
| visible<--methods | Accessors for the slot visible |
-- misc --
| $-method | Class "MapCollection" |
| $-method | Class "MapSet" |
| +-method | Class "MapCollection" |
| +-method | Class "MareyMap" |
| +-method | Class "MapSet" |
| --method | Class "MapCollection" |
| --method | Class "MapSet" |
| [-method | Class "MapCollection" |
| [-method | Class "MareyMap" |
| [-method | Class "MapSet" |
| [[-method | Class "MapCollection" |
| [[-method | Class "MareyMap" |
| [[-method | Class "MapSet" |
| [[<--method | Class "MapCollection" |
| [[<--method | Class "MareyMap" |
| [[<--method | Class "MapSet" |