PAC: Partition-Assisted Clustering and Multiple Alignments of Networks

Implements Partition-Assisted Clustering and Multiple Alignments of Networks. It 1) utilizes partition-assisted clustering to find robust and accurate clusters and 2) discovers coherent relationships of clusters across multiple samples. It is particularly useful for analyzing single-cell data set.

AuthorYe Henry Li, Dangna Li
Date of publication2017-01-23 16:42:25
MaintainerYe Henry Li <ywli@stanford.edu>
LicenseGPL-3
Version1.0.6

View on CRAN

Functions

aggregateData Man page
annotateClades Man page
annotationMatrix_withSubpopProp Man page
BSPLeaveCenter Man page
fmeasure Man page
getRepresentativeNetworks Man page
heatmapInput Man page
JaccardSM Man page
MAN Man page
MINetwork_matrix_topEdges Man page
MINetworkPlot_topEdges Man page
MINetwork_simplified_topEdges Man page
outputNetworks_topEdges_matrix Man page
outputRepresentativeNetworks_topEdges Man page
PAC Man page
refineSubpopulationLabels Man page
samplePass Man page

Files

PAC
PAC/inst
PAC/inst/doc
PAC/inst/doc/intro.html
PAC/inst/doc/intro.md
PAC/inst/doc/intro.R
PAC/inst/doc/intro.Rmd
PAC/src
PAC/src/Makevars
PAC/src/bsp.h
PAC/src/util.cc
PAC/src/pac-wrapper.cc
PAC/src/util.h
PAC/src/bspconst.h
PAC/src/bsp.cc
PAC/src/RcppExports.cpp
PAC/src/type.h
PAC/NAMESPACE
PAC/R
PAC/R/MINetwork_matrix_topEdges.R PAC/R/PAC.R PAC/R/outputNetworks_topEdges_matrix.R PAC/R/samplePass.R PAC/R/JaccardSM.R PAC/R/outputRepresentativeNetworks_topEdges.R PAC/R/aggregateData.R PAC/R/heatmapInput.R PAC/R/RcppExports.R PAC/R/annotateClades.R PAC/R/MINetwork_simpliefied_topEdges.R PAC/R/refineSubpopulationLabels.R PAC/R/getRepresentativeNetworks.R PAC/R/fmeasure.R PAC/R/annotationMatrix_withSubpopProp.R PAC/R/MAN.R PAC/R/MINetworkPlot_topEdges.R
PAC/vignettes
PAC/vignettes/BCR.Rdata
PAC/vignettes/bioexample.md
PAC/vignettes/intro.Rmd
PAC/vignettes/references.bib
PAC/vignettes/bioexample.html
PAC/vignettes/IL7.Rdata
PAC/vignettes/bioexample.Rmd
PAC/vignettes/Basal.Rdata
PAC/MD5
PAC/build
PAC/build/vignette.rds
PAC/DESCRIPTION
PAC/man
PAC/man/annotateClades.Rd PAC/man/PAC.Rd PAC/man/MINetwork_matrix_topEdges.Rd PAC/man/heatmapInput.Rd PAC/man/JaccardSM.Rd PAC/man/outputRepresentativeNetworks_topEdges.Rd PAC/man/samplePass.Rd PAC/man/BSPLeaveCenter.Rd PAC/man/MAN.Rd PAC/man/getRepresentativeNetworks.Rd PAC/man/outputNetworks_topEdges_matrix.Rd PAC/man/annotationMatrix_withSubpopProp.Rd PAC/man/MINetworkPlot_topEdges.Rd PAC/man/fmeasure.Rd PAC/man/refineSubpopulationLabels.Rd PAC/man/MINetwork_simplified_topEdges.Rd PAC/man/aggregateData.Rd
PAC/configure.win
PAC/cleanup.win

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.