CONFESS: Cell OrderiNg by FluorEScence Signal

Single Cell Fluidigm Spot Detector.

AuthorDiana LOW and Efthimios MOTAKIS
Date of publicationNone
MaintainerDiana LOW <dlow@imcb.a-star.edu.sg>
LicenseGPL-2
Version1.2.0

View on Bioconductor

Man pages

addKpredictions: addKpredictions

adjustFluo: adjustFluo

aveDiff: aveDiff

BatchFluo: BatchFluo

BGcorrectFluo: BGcorrectFluo

boxcoxMatrix: boxcoxMatrix

boxcoxMatrixEst: boxcoxMatrixEst

boxFluo: boxFluo

caseof0s: caseof0s

caseof1R0G: caseof1R0G

caseof1R1G: caseof1R1G

caseof1R2G: caseof1R2G

caseof2R1G: caseof2R1G

caseof2R2G: caseof2R2G

caseof2Rs0G: caseof2Rs0G

clu: clu

cluster2outlier: cluster2outlier

contrastFluo: contrastFluo

cpoints: cpoints

cpPELT: cpPELT

createFluo: createFluo

cutpointsEstimator: cutpointsEstimator

CVsampler: CVsampler

DDHFfit: DDHFfit

DDHFinput: DDHFinput

ddhft.np.2: ddhft.np.2

defineLocClusters: defineLocClusters

denoisefun: denoisefun

denoiser: denoiser

despecklefun: despecklefun

diagnoseResiduals: diagnoseResiduals

distfromcenter: distfromcenter

doTransform: doTransform

estimate.new.pseudotimes: estimate.new.pseudotimes

estimatePath: estimatePath

estimates: estimates

estimates.2: estimates.2

extractBFArea: extractBFarea

failurecase: failurecase

fclust: fclust

files: files

filled.contour3: filled.contour3

findPattern: findPattern

fixPath: FixPath

flowclust_step1: flowclust_step1

flowclust_step2: flowclust_step2

Fluo_adjustment: Fluo_adjustment

Fluo_CV_modeling: Fluo_CV_modeling

Fluo_CV_prep: Fluo_CV_prep

Fluo_inspection: Fluo_inspection

FluoInspection: FluoInspection

Fluo_modeling: Fluo_modeling

Fluo_ordering: Fluo_ordering

FluoSelection_byRun: FluoSelection_byRun

forceBF: forceBF

function.from.vector: function.from.vector

GAPanalysis: GAPanalysis

getCoordinates_stats: getCoordinates_stats

getCsFAIL: getCsFAIL

getFluo: getFluo

getFluo_byRun: getFluo_byRun

getSpot: getSpot

giveWarning: giveWarning

grouplines: grouplines

grubbs: grubbs

GrubbsOutliers: GrubbsOutliers

highlight.cols: highlight.cols

invTransform: invTransform

isotone: isotone

joinAreas: joinAreas

listSorter: listSorter

lmFluo: lmFluo

LocationMatrix: LocationMatrix

mean_signal: mean_signal

measureB: measureB

measureF: measureF

multiplot: multiplot

myt: myt

orderFluo: orderFluo

pathEstimator: pathEstimator

path.initiator: path.initiator

pathUpdater: pathUpdater

plot_clusgap: plot_clusgap

plotImages: plotImages

predict.kmeans: predict.kmeans

processImg: processImg

project: project

readChaImg: readChaImg

readFiles: readFiles

readOriImg: readOriImg

reestimate.pseudos.byCV: reestimate.pseudos.byCV

refineMixes: refineMixes

Results: Results

revDDHFinput: revDDHFinput

signal.from.matrix: signal.from.matrix

significantSignal: significantSignal

simcells: simcells

sortCentroids: sortCentroids

SpotbyStrLines: SpotbyStrLines

spotCenter: spotCenter

spotCoords: spotCoords

spotEstimator: spotEstimator

spot.simulator: spot.simulator

SpotStats: spotStats

step1: step1

step2: step2

step2.1: step2.1

step3: step3

step3.1: step3.1

step4: step4

steps2_4: steps2_4

straightColLines: straightColLines

straightRowLines: straightRowLines

subsetAnalysis: subsetAnalysis

summarizeAdjFluo: summarizeAdjFluo

transformFluo: transformFluo

trigofun: trigofun

unnormalizeC01: unnormalizeC01

updateCentroids: updateCentroids

updateCentroidsPaths: updateCentroidsPaths

which.min.diff: which.min.diff

zoomInBF: zoomInBF

Files in this package

CONFESS/.BBSoptions
CONFESS/DESCRIPTION
CONFESS/NAMESPACE
CONFESS/NEWS
CONFESS/R
CONFESS/R/cases.R CONFESS/R/fluo_NBE.R CONFESS/R/fluo_est.R CONFESS/R/internal_DDHF.R CONFESS/R/internal_fluo_NBE.R CONFESS/R/internal_fluo_est.R CONFESS/R/simulator.R
CONFESS/build
CONFESS/build/vignette.rds
CONFESS/data
CONFESS/data/Results.rda
CONFESS/data/clu.rda
CONFESS/data/estimates.2.rda
CONFESS/data/estimates.rda
CONFESS/data/files.rda
CONFESS/data/step1.rda
CONFESS/data/step2.1.rda
CONFESS/data/step2.rda
CONFESS/data/step3.1.rda
CONFESS/data/step3.rda
CONFESS/data/step4.rda
CONFESS/data/steps2_4.rda
CONFESS/inst
CONFESS/inst/doc
CONFESS/inst/doc/vignette.R
CONFESS/inst/doc/vignette.Rmd
CONFESS/inst/doc/vignette.html
CONFESS/inst/doc/vignette_tex.R
CONFESS/inst/doc/vignette_tex.Rnw
CONFESS/inst/doc/vignette_tex.pdf
CONFESS/inst/extdata
CONFESS/inst/extdata/Results_of_image_analysis.txt
CONFESS/man
CONFESS/man/BGcorrectFluo.Rd CONFESS/man/BatchFluo.Rd CONFESS/man/CVsampler.Rd CONFESS/man/DDHFfit.Rd CONFESS/man/DDHFinput.Rd CONFESS/man/FluoInspection.Rd CONFESS/man/FluoSelection_byRun.Rd CONFESS/man/Fluo_CV_modeling.Rd CONFESS/man/Fluo_CV_prep.Rd CONFESS/man/Fluo_adjustment.Rd CONFESS/man/Fluo_inspection.Rd CONFESS/man/Fluo_modeling.Rd CONFESS/man/Fluo_ordering.Rd CONFESS/man/GAPanalysis.Rd CONFESS/man/GrubbsOutliers.Rd CONFESS/man/LocationMatrix.Rd CONFESS/man/Results.Rd CONFESS/man/SpotStats.Rd CONFESS/man/SpotbyStrLines.Rd CONFESS/man/addKpredictions.Rd CONFESS/man/adjustFluo.Rd CONFESS/man/aveDiff.Rd CONFESS/man/boxFluo.Rd CONFESS/man/boxcoxMatrix.Rd CONFESS/man/boxcoxMatrixEst.Rd CONFESS/man/caseof0s.Rd CONFESS/man/caseof1R0G.Rd CONFESS/man/caseof1R1G.Rd CONFESS/man/caseof1R2G.Rd CONFESS/man/caseof2R1G.Rd CONFESS/man/caseof2R2G.Rd CONFESS/man/caseof2Rs0G.Rd CONFESS/man/clu.Rd CONFESS/man/cluster2outlier.Rd CONFESS/man/contrastFluo.Rd CONFESS/man/cpPELT.Rd CONFESS/man/cpoints.Rd CONFESS/man/createFluo.Rd CONFESS/man/cutpointsEstimator.Rd CONFESS/man/ddhft.np.2.Rd CONFESS/man/defineLocClusters.Rd CONFESS/man/denoisefun.Rd CONFESS/man/denoiser.Rd CONFESS/man/despecklefun.Rd CONFESS/man/diagnoseResiduals.Rd CONFESS/man/distfromcenter.Rd CONFESS/man/doTransform.Rd CONFESS/man/estimate.new.pseudotimes.Rd CONFESS/man/estimatePath.Rd CONFESS/man/estimates.2.Rd CONFESS/man/estimates.Rd CONFESS/man/extractBFArea.Rd CONFESS/man/failurecase.Rd CONFESS/man/fclust.Rd CONFESS/man/files.Rd CONFESS/man/filled.contour3.Rd CONFESS/man/findPattern.Rd CONFESS/man/fixPath.Rd CONFESS/man/flowclust_step1.Rd CONFESS/man/flowclust_step2.Rd CONFESS/man/forceBF.Rd CONFESS/man/function.from.vector.Rd CONFESS/man/getCoordinates_stats.Rd CONFESS/man/getCsFAIL.Rd CONFESS/man/getFluo.Rd CONFESS/man/getFluo_byRun.Rd CONFESS/man/getSpot.Rd CONFESS/man/giveWarning.Rd CONFESS/man/grouplines.Rd CONFESS/man/grubbs.Rd CONFESS/man/highlight.cols.Rd CONFESS/man/invTransform.Rd CONFESS/man/isotone.Rd CONFESS/man/joinAreas.Rd CONFESS/man/listSorter.Rd CONFESS/man/lmFluo.Rd CONFESS/man/mean_signal.Rd CONFESS/man/measureB.Rd CONFESS/man/measureF.Rd CONFESS/man/multiplot.Rd CONFESS/man/myt.Rd CONFESS/man/orderFluo.Rd CONFESS/man/path.initiator.Rd CONFESS/man/pathEstimator.Rd CONFESS/man/pathUpdater.Rd CONFESS/man/plotImages.Rd CONFESS/man/plot_clusgap.Rd CONFESS/man/predict.kmeans.Rd CONFESS/man/processImg.Rd CONFESS/man/project.Rd CONFESS/man/readChaImg.Rd CONFESS/man/readFiles.Rd CONFESS/man/readOriImg.Rd CONFESS/man/reestimate.pseudos.byCV.Rd CONFESS/man/refineMixes.Rd CONFESS/man/revDDHFinput.Rd CONFESS/man/signal.from.matrix.Rd CONFESS/man/significantSignal.Rd CONFESS/man/simcells.Rd CONFESS/man/sortCentroids.Rd CONFESS/man/spot.simulator.Rd CONFESS/man/spotCenter.Rd CONFESS/man/spotCoords.Rd CONFESS/man/spotEstimator.Rd CONFESS/man/step1.Rd CONFESS/man/step2.1.Rd CONFESS/man/step2.Rd CONFESS/man/step3.1.Rd CONFESS/man/step3.Rd CONFESS/man/step4.Rd CONFESS/man/steps2_4.Rd CONFESS/man/straightColLines.Rd CONFESS/man/straightRowLines.Rd CONFESS/man/subsetAnalysis.Rd CONFESS/man/summarizeAdjFluo.Rd CONFESS/man/transformFluo.Rd CONFESS/man/trigofun.Rd CONFESS/man/unnormalizeC01.Rd CONFESS/man/updateCentroids.Rd CONFESS/man/updateCentroidsPaths.Rd CONFESS/man/which.min.diff.Rd CONFESS/man/zoomInBF.Rd
CONFESS/vignettes
CONFESS/vignettes/defineLocClusters.jpeg
CONFESS/vignettes/fluo_CV_modeling.jpeg
CONFESS/vignettes/fluo_CV_modeling_2.jpeg
CONFESS/vignettes/fluo_adjustment.jpeg
CONFESS/vignettes/fluo_inspection_GAP.jpeg
CONFESS/vignettes/fluo_inspection_clusters.jpeg
CONFESS/vignettes/fluo_ordering.jpeg
CONFESS/vignettes/spotEstimator.jpeg
CONFESS/vignettes/spotEstimator2.jpeg
CONFESS/vignettes/vignette.Rmd
CONFESS/vignettes/vignette_tex.Rnw

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

All documentation is copyright its authors; we didn't write any of that.