addPalette | Manually add a heatmap palette and view the currently loaded... |
bactKymo | Creates kymographs or demographs from pixel values & cell... |
bactmapnews | This is the development version of BactMAP |
checkVersionCompatible | check whether your data frames are compatible with the... |
colorsCUD | Return CUD color palette with color titles |
combineDataframes | Function to combine data by condition (e.g. mutant vs wild... |
createPlotlist | Function to create descriptive plots of spot localization per... |
extr_ISBatch | Import ISBatch/Peakfitter data into R |
extr_Meshes | Generic function to upload cell outlines from a .csv or .txt... |
extr_Microbe | upload MicrobeJ output into R for further analysis |
extr_Morphometrics | Upload cell outlines segmented using Morphometrics |
extr_ObjectJ | Upload and transform ObjectJ bounding box data. |
extr_OriginalStack | Convert original TIFF image stack used to gather spot and... |
extr_Oufti | Function to import Oufti data. |
extr_Spots | Generic function for extraction of spot data |
extr_SuperSeggerCells | Convert SuperSegger cell outlines & genealogy to standard... |
Mesh | Format of the Mesh dataframe |
micron | Get back the unicode character for the micro-sign + m... |
object | Object DataFrames |
objectInBox | Connect detected objects to detected cell meshes; turn all... |
onePerCell | Function to get a dataframe per cell out of your mesh, spots,... |
orientCells | Orient your cells by the side in which your spots or objects... |
perc_Division | Filter timelapse data by growth speed and whether cells... |
pixels2um | Add and look up magnification factor "pixels2um" |
plotCellsTime | Function to plot cell fluorescence from a TIFF over time. |
plotObjects | Create plots similar to createPlotList using intracellular... |
plotOverlay | Display spot- and/or object-localization of different color... |
plotRaw | Plot TIFF, cell contours and/or spot localization on the... |
plotTracks | Plot tracked spots and/or objects over time in 1 or 2... |
plottreeBasic | Plot cell genealogy information as networks using ggtree. |
prepForKymo | Prepare whole dataset for single cell kymographs. |
Shinyspots_documentation | BactMAP: Analyze Bacterial Cell Segmentation And Fluoresence... |
spotframe | Spot Data: dataframes describing fluorescent spot coordinates... |
spotsInBox | Put spots in boxes |
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