cytofkit: cytofkit: an integrated mass cytometry data analysis pipeline

An integrated mass cytometry data analysis pipeline that enables simultaneous illustration of cellular diversity and progression.

AuthorJinmiao Chen, Hao Chen
Date of publicationNone
MaintainerJinmiao Chen <Chen_Jinmiao@immunol.a-star.edu.sg>, Hao Chen <chen_hao@immunol.a-star.edu.sg>
LicenseArtistic-2.0
Version1.6.1

View on Bioconductor

Functions

ClusterX Man page
cytof_addToFCS Man page
cytof_cluster Man page
cytof_clusterPlot Man page
cytof_clusterStat Man page
cytof_colorPlot Man page
cytof_dimReduction Man page
cytof_exprsExtract Man page
cytof_exprsMerge Man page
cytof_heatmap Man page
cytofkit Man page
cytofkit_GUI Man page
cytofkitNews Man page
cytofkit-package Man page
cytofkitShinyAPP Man page
cytof_progression Man page
cytof_progressionPlot Man page
cytof_writeResults Man page
DensVM Man page
getParameters_GUI Man page
launchShinyAPP_GUI Man page
Rphenograph Man page

Files

cytofkit/DESCRIPTION
cytofkit/NAMESPACE
cytofkit/R
cytofkit/R/ClusterX.R cytofkit/R/DensVM.R cytofkit/R/RcppExports.R cytofkit/R/Rphenograph.R cytofkit/R/cytof_cluster.R cytofkit/R/cytof_dimensionReduction.R cytofkit/R/cytof_postProcess.R cytofkit/R/cytof_preProcess.R cytofkit/R/cytof_progression.R cytofkit/R/cytofkit.R cytofkit/R/cytofkit_GUI.R
cytofkit/Rplots.pdf
cytofkit/build
cytofkit/build/vignette.rds
cytofkit/inst
cytofkit/inst/CITATION
cytofkit/inst/NEWS.Rd
cytofkit/inst/doc
cytofkit/inst/doc/cytofkit_example.R
cytofkit/inst/doc/cytofkit_example.Rmd
cytofkit/inst/doc/cytofkit_example.html
cytofkit/inst/doc/cytofkit_shinyAPP.R
cytofkit/inst/doc/cytofkit_shinyAPP.Rmd
cytofkit/inst/doc/cytofkit_shinyAPP.html
cytofkit/inst/doc/cytofkit_workflow.R
cytofkit/inst/doc/cytofkit_workflow.Rmd
cytofkit/inst/doc/cytofkit_workflow.html
cytofkit/inst/extdata
cytofkit/inst/extdata/130515_C2_stim_CD19-.fcs
cytofkit/inst/extdata/demo_fcs.RData
cytofkit/inst/extdata/help.gif
cytofkit/inst/extdata/help.png
cytofkit/inst/extdata/parameter.txt
cytofkit/inst/shiny
cytofkit/inst/shiny/global.R
cytofkit/inst/shiny/server.R
cytofkit/inst/shiny/ui.R
cytofkit/inst/unitTests
cytofkit/inst/unitTests/test_cytof_dimReduction.R
cytofkit/man
cytofkit/man/ClusterX.Rd cytofkit/man/DensVM.Rd cytofkit/man/Rphenograph.Rd cytofkit/man/cytof_addToFCS.Rd cytofkit/man/cytof_cluster.Rd cytofkit/man/cytof_clusterPlot.Rd cytofkit/man/cytof_clusterStat.Rd cytofkit/man/cytof_colorPlot.Rd cytofkit/man/cytof_dimReduction.Rd cytofkit/man/cytof_exprsExtract.Rd cytofkit/man/cytof_exprsMerge.Rd cytofkit/man/cytof_heatmap.Rd cytofkit/man/cytof_progression.Rd cytofkit/man/cytof_progressionPlot.Rd cytofkit/man/cytof_writeResults.Rd cytofkit/man/cytofkit-package.Rd cytofkit/man/cytofkit.Rd cytofkit/man/cytofkitNews.Rd cytofkit/man/cytofkitShinyAPP.Rd cytofkit/man/cytofkit_GUI.Rd cytofkit/man/getParameters_GUI.Rd cytofkit/man/launchShinyAPP_GUI.Rd
cytofkit/src
cytofkit/src/RcppExports.cpp
cytofkit/src/jaccard_coeff.cpp
cytofkit/tests
cytofkit/tests/runTests.R
cytofkit/vignettes
cytofkit/vignettes/cluster_panel.png
cytofkit/vignettes/cytofkit_GUI.png
cytofkit/vignettes/cytofkit_example.Rmd
cytofkit/vignettes/cytofkit_pipeline.png
cytofkit/vignettes/cytofkit_shinyAPP.Rmd
cytofkit/vignettes/cytofkit_workflow.Rmd
cytofkit/vignettes/load2shiny.png
cytofkit/vignettes/marker_panel.png
cytofkit/vignettes/progression_panel.png
cytofkit/vignettes/sample_panel.png

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

Please suggest features or report bugs with the GitHub issue tracker.

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