Files in JinmiaoChenLab/cytofkit2
cytofkit2: an integrated mass cytometry data analysis pipeline. Cytofkit provides functions for data pre-processing, fast clustering, data visualization through linear or non-linear dimensionality reduction, automatic identification of cell subsets, and inference of the relatedness between cell subsets
.gitignore
DESCRIPTION
NAMESPACE
R/ClusterX.R
R/DensVM.R
R/RcppExports.R
R/Rphenograph.R
R/cytof_cluster.R
R/cytof_dimensionReduction.R
R/cytof_postProcess.R
R/cytof_preProcess.R
R/cytof_progression.R
R/cytofkit.R
R/cytofkit_shinyAPP.R
R/cytofkit_shiny_dashboard.R
README.md
inst/CITATION
inst/NEWS.Rd
inst/extdata/S4_PBMC.fcs
inst/extdata/demo_fcs.RData
inst/extdata/help.gif
inst/extdata/help.png
inst/extdata/parameter.txt
inst/scripts/Description_FCS_file.txt
inst/shiny/global.R
inst/shiny/pdf_report_template.Rmd
inst/shiny/server.R
inst/shiny/ui.R
inst/shiny/www/custom.css
inst/unitTests/test_cytof_dimReduction.R
man/ClusterX.Rd
man/DensVM.Rd
man/Rphenograph.Rd
man/cytof_addToFCS.Rd
man/cytof_cluster.Rd
man/cytof_clusterMtrx.Rd
man/cytof_clusterPlot.Rd
man/cytof_clusterStat.Rd
man/cytof_colorPlot.Rd
man/cytof_dimReduction.Rd
man/cytof_exprsExtract.Rd
man/cytof_exprsMerge.Rd
man/cytof_heatmap.Rd
man/cytof_progression.Rd
man/cytof_progressionPlot.Rd
man/cytof_writeResults.Rd
man/cytofkit.Rd
man/cytofkit2-package.Rd
man/cytofkitNews.Rd
man/cytofkitShinyAPP.Rd
man/cytofkit_shiny_dashboard.Rd
man/spectral1.Rd
man/spectral2.Rd
src/.gitignore
src/RcppExports.cpp
src/jaccard_coeff.cpp
tests/runTests.R
vignettes/cluster_panel.png
vignettes/cytofkit_GUI.png
vignettes/cytofkit_example.Rmd
vignettes/cytofkit_pipeline.png
vignettes/cytofkit_shinyAPP.Rmd
vignettes/cytofkit_workflow.Rmd
vignettes/load2shiny.png
vignettes/logo.png
vignettes/marker_panel.png
vignettes/progression_panel.png
vignettes/sample_panel.png
