Files in Sconify

A toolkit for performing KNN-based statistics for flow and mass cytometry data

README.md

NAMESPACE

DESCRIPTION

build/vignette.rds

data/wand.final.rda

data/bz.gmcsf.final.rda

data/input.markers.rda

data/markers.rda

data/funct.markers.rda

data/wand.scone.rda

data/bz.gmcsf.final.norm.scale.rda

data/wand.ideal.k.rda

data/wand.il7.rda

data/exist.rda

data/wand.combined.rda

R/post.processing.R R/k.selection.R R/process.files.R R/knn.and.statistics.R R/data.R

vignettes/sconify_visual_explanation.png

vignettes/Step1.PreProcessing.Rmd

vignettes/original.markers.csv.example.png

vignettes/DataQuality.Rmd vignettes/Step3.PostProcessing.Rmd

vignettes/sconify_proof_of_concept.png

vignettes/modified.markers.csv.example.png

vignettes/FindingIdealK.Rmd vignettes/Step2.TheSconeWorkflow.Rmd man/funct.markers.Rd man/ImputeTesting.Rd man/QuantNormalize.Rd man/QCorrectionThresholding.Rd man/markers.Rd man/exist.Rd man/ParseMarkers.Rd man/wand.ideal.k.Rd man/MakeHist.Rd man/SubsampleAndTsne.Rd man/GetMarkerNames.Rd man/wand.final.Rd man/MeaningOfLife.Rd man/TsneVis.Rd man/Impute.Rd man/wand.combined.Rd man/PostProcessing.Rd man/wand.scone.Rd man/RunStatistics.Rd man/SplitFile.Rd man/FcsToTibble.Rd man/bz.gmcsf.final.norm.scale.Rd man/bz.gmcsf.final.Rd man/AddTsne.Rd man/input.markers.Rd man/GetKnnDe.Rd man/ProcessMultipleFiles.Rd man/LogTransformQ.Rd man/StringToNumbers.Rd man/MultipleDonorStatistics.Rd man/wand.il7.Rd man/MakeKnnList.Rd man/Fnn.Rd man/QuantNormalizeElements.Rd man/SconeValues.Rd tests/testthat.R tests/testthat/test.k.selection.R tests/testthat/test.file.processing.R tests/testthat/test.post.processing.R tests/testthat/test.knn.and.statistics.R

inst/NEWS.txt

inst/doc/Step1.PreProcessing.Rmd inst/doc/FindingIdealK.R inst/doc/DataQuality.Rmd inst/doc/Step3.PostProcessing.Rmd

inst/doc/DataQuality.html

inst/doc/Step1.PreProcessing.R

inst/doc/Step2.TheSconeWorkflow.html

inst/doc/FindingIdealK.html

inst/doc/FindingIdealK.Rmd inst/doc/Step2.TheSconeWorkflow.R

inst/doc/Step3.PostProcessing.html

inst/doc/Step3.PostProcessing.R

inst/doc/Step1.PreProcessing.html

inst/doc/DataQuality.R inst/doc/Step2.TheSconeWorkflow.Rmd

inst/extdata/Bendall_et_al_Cell_Sample_C_basal.fcs

inst/extdata/markers.csv

inst/extdata/Bendall_et_al_Cell_Sample_C_IL7.fcs

Sconify documentation built on Nov. 8, 2020, 6:45 p.m.