Files in zhongmicai/bigSCale2_singleCell
A framework for the analysis of single cell data (RNA-seq and ATAC-seq) including clustering,phenotyping,pseudotime and inferring gene regulatory networks.
DESCRIPTION
NAMESPACE
R/Functions.R
R/RcppExports.R
R/SingleCellMethods.R
R/package-init.R
Readme.md
data/atac_sce.RData
data/datalist
data/pancreas.RData
data/sce.RData
figures/10xUGM.png
figures/Aqp4.png
figures/atac.png
figures/atac_M1_1.png
figures/atac_clusters.png
figures/atac_dt.png
figures/atac_il1b.png
figures/atac_ms4a1.png
figures/atac_ms4a1_prom.png
figures/atac_pseudo.png
figures/atac_signatures.png
figures/classifier.png
figures/datatable.png
figures/datatable5.png
figures/datatable_centrality.png
figures/datatable_centrality2.png
figures/genes.png
figures/model.png
figures/multimarkers.png
figures/odgenes.png
figures/pseudo.png
figures/pseudo_clu.png
figures/signatures1.png
figures/stmn3.png
figures/superclu.png
figures/tsne_clusters.png
figures/tsne_gene.png
figures/viewsignatures.png
man/RecursiveClustering.Rd
man/ViewPseudo.Rd
man/bigSCale-package.Rd
man/bigscale.Rd
man/bigscale.atac.Rd
man/bigscale.atac.pseudo.Rd
man/bigscale.convert.h5.Rd
man/bigscale.readMM.Rd
man/bigscale.writeMM.Rd
man/bigscaleDE.Rd
man/compare.centrality.Rd
man/compute.atac.network.Rd
man/compute.distances.icell.Rd
man/compute.network.Rd
man/computeMarkers.Rd
man/deconvolute.Rd
man/extract.cells.Rd
man/getClusters.Rd
man/getDistances.Rd
man/getMarkers.Rd
man/getSignatures.Rd
man/iCells.Rd
man/preProcess.Rd
man/rcpp_hello_world.Rd
man/restoreData.Rd
man/setClusters.Rd
man/setDistances.Rd
man/setMarkers.Rd
man/setModel.Rd
man/setODgenes.Rd
man/storeNormalized.Rd
man/storePseudo.Rd
man/storeTransformed.Rd
man/storeTsne.Rd
man/storeUMAP.Rd
man/viewGeneBarPlot.Rd
man/viewGeneViolin.Rd
man/viewModel.Rd
man/viewODgenes.Rd
man/viewReduced.Rd
man/viewSignatures.Rd
src/RcppExports.cpp
src/de.cpp
src/dist.cpp
src/dist_icells.cpp
src/rcpp_hello_world.cpp
