Files in reggenlab/UniPath
UniPath provides robust statistical methods to represent every single cell using pathway and gene-set enrichment scores. It can be used with both single cell RNA-seq and single cell ATAC-seq profile with scalability for atlas scale data-sets. Unipath comes with several features like psuedo-temporal ordering using pathway scores and unconventional way of enumerating differences between two cell populations.
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DESCRIPTION
GSE81861.RData
NAMESPACE
R/Counttofpkm.R
R/KNN.R
R/PathwayCooccurrence.R
R/class.R
R/combine_p_values.R
R/difcoccur.R
R/distclust.R
R/drimpute.R
R/global_accessibility_scores.R
R/gradient.R
R/index.R
R/makecolor.R
R/minimum_spanning_tree.R
R/mst_plot.R
R/nearest_gene.R
R/padjust.R
R/pvals.R
R/runGO.R
R/shrinkdist.R
R/teomporal.R
UniPath.Rproj
_Rbuildignore
_Rhistory
data/GSE52583_expression_data.RData
data/GSE75748pathwayscores.RData
data/GSE81861.RData
data/c2.cp.v6.1.symbols.RData
data/c5.bp.v6.0.symbols.RData
data/human_markers.RData
data/human_null_model.RData
data/lungCancer_pathway_scores.RData
data/mouse_null_model.RData
inst/extdata/GSE116248_imputed_count.csv
inst/extdata/GSE116248_peaks.txt
inst/extdata/background_human
inst/extdata/global_accessibility_score_human.csv
inst/extdata/global_accessibility_score_mouse.csv
inst/extdata/nearestGenes.pl
inst/extdata/reference_peaks_human.txt
inst/extdata/refseq-hg19.txt
man/KNN.Rd
man/adjust.Rd
man/binorm.Rd
man/class1.Rd
man/combine.Rd
man/difcoccur.Rd
man/dist_clust.Rd
man/distance.Rd
man/drimpute.Rd
man/global_access.Rd
man/gradient.Rd
man/index.Rd
man/minimum_spanning_tree.Rd
man/mst.plot.mod.Rd
man/nearest_gene.Rd
man/runGO.Rd
man/temporaldif.Rd
