Man pages for vrrenske/shinyspots
Visualization and Analysis of Bacterial Cell Segmentation and Fluorescence Data

addPaletteManually add a heatmap palette and view the currently loaded...
bactKymoCreates kymographs or demographs from pixel values & cell...
bactmapnewsWhat's new in BactMAP 0.1.0.1?
checkVersionCompatiblecheck whether your data frames are compatible with the...
colorsCUDReturn CUD color palette with color titles
combineDataframesFunction to combine data by condition (e.g. mutant vs wild...
createPlotlistFunction to create descriptive plots of spot localization per...
extr_ISBatchImport ISBatch/Peakfitter data into R
extr_MeshesGeneric function to upload cell outlines from a .csv or .txt...
extr_Microbeupload MicrobeJ output into R for further analysis
extr_MorphometricsUpload cell outlines segmented using Morphometrics
extr_ObjectJUpload and transform ObjectJ bounding box data.
extr_OriginalStackConvert original TIFF image stack used to gather spot and...
extr_OuftiFunction to import Oufti data.
extr_SpotsGeneric function for extraction of spot data
extr_SuperSeggerCellsConvert SuperSegger cell outlines & genealogy to standard...
MeshFormat of the Mesh dataframe
micronGet back the unicode character for the micro-sign + m...
objectObject DataFrames
objectInBoxConnect detected objects to detected cell meshes; turn all...
perc_DivisionFilter timelapse data by growth speed and whether cells...
pixels2umAdd and look up magnification factor "pixels2um"
plotCellsTimeFunction to plot cell fluorescence from a TIFF over time.
plotObjectsCreate plots similar to createPlotList using intracellular...
plotOverlayDisplay spot- and/or object-localization of different color...
plotRawPlot TIFF, cell contours and/or spot localization on the...
plotTracksPlot tracked spots and/or objects over time in 1 or 2...
plottreeBasicPlot cell genealogy information as networks using ggtree.
prepForKymoPrepare whole dataset for single cell kymographs.
Shinyspots_documentationBactMAP: Analyze Bacterial Cell Segmentation And Fluoresence...
spotframeSpot Data: dataframes describing fluorescent spot coordinates...
spotsInBoxPut spots in boxes
vrrenske/shinyspots documentation built on Nov. 7, 2019, 10:35 a.m.