ClusterSignificance: The ClusterSignificance package provides tools to assess if clusters have a separation different from random or permuted data

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The ClusterSignificance package provides tools to assess if clusters have a separation different from random or permuted data. ClusterSignificance investigates clusters of two or more groups by first, projecting all points onto a one dimensional line. Cluster separations are then scored and the probability of the seen separation being due to chance is evaluated using a permutation method.

Author
Jason T. Serviss and Jesper R. Gadin
Date of publication
None
Maintainer
Jason T Serviss <jason.serviss@ki.se>
License
GPL-3
Version
1.2.0

View on Bioconductor

Man pages

classify
Classification of the one dimensional points in a Pcp or Mlp...
ClusterSignificance-package
The ClusterSignificance package provides tools to assess if...
mlp
Projection of points into one dimension.
mlpMatrix
Simulated data used to demonstrate the Mlp method.
pcp
Projection of points into one dimension.
pcpMatrix
Simulated data used to demonstrate the Pcp method.
permute
Permutation test

Files in this package

ClusterSignificance/.travis.yml
ClusterSignificance/DESCRIPTION
ClusterSignificance/NAMESPACE
ClusterSignificance/NEWS
ClusterSignificance/R
ClusterSignificance/R/All-classes.R
ClusterSignificance/R/ClusterSignificance-package.R
ClusterSignificance/R/classifier-methods.R
ClusterSignificance/R/initialize-methods.R
ClusterSignificance/R/mlpMatrix.R
ClusterSignificance/R/pcpMatrix.R
ClusterSignificance/R/permutation-methods.R
ClusterSignificance/R/plot-methods.R
ClusterSignificance/R/projection-methods.R
ClusterSignificance/R/show-methods.R
ClusterSignificance/README.md
ClusterSignificance/build
ClusterSignificance/build/vignette.rds
ClusterSignificance/data
ClusterSignificance/data/mlpMatrix.rda
ClusterSignificance/data/pcpMatrix.rda
ClusterSignificance/inst
ClusterSignificance/inst/data-raw
ClusterSignificance/inst/data-raw/demoData.R
ClusterSignificance/inst/doc
ClusterSignificance/inst/doc/ClusterSignificance-vignette.R
ClusterSignificance/inst/doc/ClusterSignificance-vignette.Rmd
ClusterSignificance/inst/doc/ClusterSignificance-vignette.html
ClusterSignificance/man
ClusterSignificance/man/ClusterSignificance-package.Rd
ClusterSignificance/man/classify.Rd
ClusterSignificance/man/mlp.Rd
ClusterSignificance/man/mlpMatrix.Rd
ClusterSignificance/man/pcp.Rd
ClusterSignificance/man/pcpMatrix.Rd
ClusterSignificance/man/permute.Rd
ClusterSignificance/tests
ClusterSignificance/tests/testthat
ClusterSignificance/tests/testthat.R
ClusterSignificance/tests/testthat/test_classifier-methods.R
ClusterSignificance/tests/testthat/test_permutation-methods.R
ClusterSignificance/tests/testthat/test_plot-methods.R
ClusterSignificance/tests/testthat/test_projection-methods.R
ClusterSignificance/vignettes
ClusterSignificance/vignettes/ClusterSignificance-vignette.Rmd