Man pages for raim/platexpress
Inspection and Analysis of Microbial Growth and Gene Expression Data
| addData | Add Data |
| addModel | Add fits from various growth model interfaces to plate data... |
| addModel.dpsegl | Add results from 'dpseg_plate' to 'platexpress' object. |
| addModel.gcFit | Add results from 'grofit_plate' to 'platexpress' object. |
| addModel.multiple_fits | Add results from package 'growthrates' to 'platexpress'... |
| addModel.segmentedl | Add results from 'segmented_plate' to 'platexpress' object. |
| adjustBase | Adjusts to Minimal Base |
| amountColors | Add Amount Colors |
| ap12data | ap12data. data by Dennis Dienst and Alice Pawloski, incl. the... |
| ap12plate | ap12plate. example plate layout map by Dennis Dienst and... |
| arrows_plate | Draw arrows of growth phases. |
| bandwidthCV.2 | hack of the cellGrowth package function 'bandwidthCV' to work... |
| boxData | Box-Plots of Data Ranges |
| correctBlanks | Subtract Blank Values |
| cutData | Cut Data Range |
| data2grofit | interface to package 'grofit' |
| data2growthrates | interface to package 'growthrates' |
| doseResponse | Dose-Response Plots with Error Bars |
| doseResponse.box | Dose-Response Box-Plots |
| dpseg_plate | Call 'dpseg' for selected wells. |
| findWavelength | Find Wavelength in Spectrum |
| fitCellGrowths.2 | batch wrapper for fitCellGrowth TODO: align in/out with... |
| gcFit.2 | hack of grofit function 'gcFit' to allow plotting even when... |
| getData | Get Data |
| getGroups | Get Groups of Replicates |
| getWells | Get List of Wells |
| grofit.2.control | wrapper of grofit function 'grofit.control' which adds the... |
| grofit_plate | high-level wrapper for 'grofit' |
| grofitResults | parse 'grofit' results |
| groupColors | Group Colors |
| groupStats | Group Statistics |
| growthratesResults | parse fitted parameters from package 'growthrates' |
| grpredict | 'predict' hack for 'growthrates' fits |
| image_plate | Plot a heatmap of 'platexpress' data. |
| interpolatePlateData | Interpolate Plate Data |
| interpolatePlateTimes | Interpolate to Common Timepoints |
| ma | Moving Average |
| mergeResults | merge results to plate layout map |
| parseAmounts | Parse Amount Strings |
| platexpress | platexpress: quick inspection and analysis of microbial... |
| plotdev | Select Plot Device |
| plotWavelength | Plot Wavelength in Spectrum |
| prettyData | Set Data IDs and colors |
| readBMG2Plate | Read BMG Optima/MARS vXXX Plate Data |
| readBMGPlate | Read BMG Optima/MARS vR3.01 R2 Plate Data |
| readExperiment | High-level interface of 'platexpress' |
| readPlateData | Read Plate Data |
| readPlateMap | Read Plate Layout Map |
| readPlateMap.old | Read Plate Layout Map |
| readSimplePlate | Read Simple Plate Data Tables |
| readSynergyPlate | Read Synergy Mx Plate Data |
| replaceAmounts | Numeric Amounts |
| rmData | Remove Data |
| segmented_plate | Call 'segmented' for selected wells. |
| shiftData | Shift Data |
| showSpectrum | Show Visual Ligh Spectrum |
| skipWells | Skip Wells |
| viewGroups | View Group Averages |
| viewMap | Plot a representation of microreader "plate" |
| viewPlate | View Plate |
| wavelength2RGB | Convert Wavelength to RGB Colors |
| writeData | writes out all data from the 'platexpress' object |
