EWCE: Expression Weighted Celltype Enrichment

Used to determine which cell types are enriched within gene lists. The package provides tools for testing enrichments within simple gene lists (such as human disease associated genes) and those resulting from differential expression studies. The package does not depend upon any particular Single Cell Transcriptome dataset and user defined datasets can be loaded in and used in the analyses.

AuthorDr Nathan Skene
Date of publicationNone
MaintainerNathan Skene <nathan.skene@gmail.com>
LicenseArtistic-2.0
Version1.2.0

View on Bioconductor

Files

EWCE/DESCRIPTION
EWCE/NAMESPACE
EWCE/R
EWCE/R/add.res.to.merging.list.R EWCE/R/bootstrap.enrichment.test.R EWCE/R/cell.list.dist.R EWCE/R/data.R EWCE/R/ewce.plot.R EWCE/R/ewce_expression_data.R EWCE/R/generate.bootstrap.plots.R EWCE/R/merged_ewce.R EWCE/R/prepare.genesize.control.network.R EWCE/R/read_celltype_data.R EWCE/R/subcell.list.dist.R
EWCE/build
EWCE/build/vignette.rds
EWCE/data
EWCE/data/celltype_data.rda
EWCE/data/datalist
EWCE/data/example_genelist.rda
EWCE/data/mouse_to_human_homologs.rda
EWCE/data/tt_alzh.rda
EWCE/data/tt_alzh_BA36.rda
EWCE/data/tt_alzh_BA44.rda
EWCE/inst
EWCE/inst/doc
EWCE/inst/doc/EWCE.R
EWCE/inst/doc/EWCE.Rmd
EWCE/inst/doc/EWCE.html
EWCE/man
EWCE/man/add.res.to.merging.list.Rd EWCE/man/bootstrap.enrichment.test.Rd EWCE/man/celltype_data.Rd EWCE/man/ewce.plot.Rd EWCE/man/ewce_expression_data.Rd EWCE/man/example_genelist.Rd EWCE/man/generate.bootstrap.plots.Rd EWCE/man/merged_ewce.Rd EWCE/man/mouse_to_human_homologs.Rd EWCE/man/read_celltype_data.Rd EWCE/man/tt_alzh.Rd EWCE/man/tt_alzh_BA36.Rd EWCE/man/tt_alzh_BA44.Rd
EWCE/vignettes
EWCE/vignettes/BootstrapPlots
EWCE/vignettes/BootstrapPlots/bootDists_LOG____VignetteGraphs____astrocytes.ependymal_.none..pdf
EWCE/vignettes/BootstrapPlots/bootDists_LOG____VignetteGraphs____astrocytes.ependymal_Astro1.pdf
EWCE/vignettes/BootstrapPlots/bootDists_LOG____VignetteGraphs____astrocytes.ependymal_Astro2.pdf
EWCE/vignettes/BootstrapPlots/bootDists_LOG____VignetteGraphs____astrocytes.ependymal_Choroid.pdf
EWCE/vignettes/BootstrapPlots/bootDists_LOG____VignetteGraphs____astrocytes.ependymal_Epend.pdf
EWCE/vignettes/BootstrapPlots/bootDists_LOG____VignetteGraphs____endothelial.mural_Vsmc.pdf
EWCE/vignettes/BootstrapPlots/bootDists_LOG____VignetteGraphs____microglia_Mgl1.pdf
EWCE/vignettes/BootstrapPlots/bootDists_LOG____VignetteGraphs____microglia_Mgl2.pdf
EWCE/vignettes/BootstrapPlots/bootDists_LOG____VignetteGraphs____microglia_Pvm1.pdf
EWCE/vignettes/BootstrapPlots/bootDists_LOG____VignetteGraphs____microglia_Pvm2.pdf
EWCE/vignettes/BootstrapPlots/bootDists_LOG____VignetteGraphs____oligodendrocytes_Oligo2.pdf
EWCE/vignettes/BootstrapPlots/bootDists_LOG____VignetteGraphs____oligodendrocytes_Oligo3.pdf
EWCE/vignettes/BootstrapPlots/bootDists_LOG____VignetteGraphs____oligodendrocytes_Oligo6.pdf
EWCE/vignettes/BootstrapPlots/bootDists_LOG____VignetteGraphs____pyramidal.CA1_CA1PyrInt.pdf
EWCE/vignettes/BootstrapPlots/bootDists____VignetteGraphs____astrocytes.ependymal_.none..pdf
EWCE/vignettes/BootstrapPlots/bootDists____VignetteGraphs____astrocytes.ependymal_Astro1.pdf
EWCE/vignettes/BootstrapPlots/bootDists____VignetteGraphs____astrocytes.ependymal_Astro2.pdf
EWCE/vignettes/BootstrapPlots/bootDists____VignetteGraphs____astrocytes.ependymal_Choroid.pdf
EWCE/vignettes/BootstrapPlots/bootDists____VignetteGraphs____astrocytes.ependymal_Epend.pdf
EWCE/vignettes/BootstrapPlots/bootDists____VignetteGraphs____endothelial.mural_Vsmc.pdf
EWCE/vignettes/BootstrapPlots/bootDists____VignetteGraphs____microglia_Mgl1.pdf
EWCE/vignettes/BootstrapPlots/bootDists____VignetteGraphs____microglia_Mgl2.pdf
EWCE/vignettes/BootstrapPlots/bootDists____VignetteGraphs____microglia_Pvm1.pdf
EWCE/vignettes/BootstrapPlots/bootDists____VignetteGraphs____microglia_Pvm2.pdf
EWCE/vignettes/BootstrapPlots/bootDists____VignetteGraphs____oligodendrocytes_Oligo2.pdf
EWCE/vignettes/BootstrapPlots/bootDists____VignetteGraphs____oligodendrocytes_Oligo3.pdf
EWCE/vignettes/BootstrapPlots/bootDists____VignetteGraphs____oligodendrocytes_Oligo6.pdf
EWCE/vignettes/BootstrapPlots/bootDists____VignetteGraphs____pyramidal.CA1_CA1PyrInt.pdf
EWCE/vignettes/BootstrapPlots/qqplot_noText____VignetteGraphs____astrocytes.ependymal_.none..pdf
EWCE/vignettes/BootstrapPlots/qqplot_noText____VignetteGraphs____astrocytes.ependymal_Astro1.pdf
EWCE/vignettes/BootstrapPlots/qqplot_noText____VignetteGraphs____astrocytes.ependymal_Astro2.pdf
EWCE/vignettes/BootstrapPlots/qqplot_noText____VignetteGraphs____astrocytes.ependymal_Choroid.pdf
EWCE/vignettes/BootstrapPlots/qqplot_noText____VignetteGraphs____astrocytes.ependymal_Epend.pdf
EWCE/vignettes/BootstrapPlots/qqplot_noText____VignetteGraphs____endothelial.mural_Vsmc.pdf
EWCE/vignettes/BootstrapPlots/qqplot_noText____VignetteGraphs____microglia_Mgl1.pdf
EWCE/vignettes/BootstrapPlots/qqplot_noText____VignetteGraphs____microglia_Mgl2.pdf
EWCE/vignettes/BootstrapPlots/qqplot_noText____VignetteGraphs____microglia_Pvm1.pdf
EWCE/vignettes/BootstrapPlots/qqplot_noText____VignetteGraphs____microglia_Pvm2.pdf
EWCE/vignettes/BootstrapPlots/qqplot_noText____VignetteGraphs____oligodendrocytes_Oligo2.pdf
EWCE/vignettes/BootstrapPlots/qqplot_noText____VignetteGraphs____oligodendrocytes_Oligo3.pdf
EWCE/vignettes/BootstrapPlots/qqplot_noText____VignetteGraphs____oligodendrocytes_Oligo6.pdf
EWCE/vignettes/BootstrapPlots/qqplot_noText____VignetteGraphs____pyramidal.CA1_CA1PyrInt.pdf
EWCE/vignettes/BootstrapPlots/qqplot_wtGSym____VignetteGraphs____astrocytes.ependymal_.none..pdf
EWCE/vignettes/BootstrapPlots/qqplot_wtGSym____VignetteGraphs____astrocytes.ependymal_Astro1.pdf
EWCE/vignettes/BootstrapPlots/qqplot_wtGSym____VignetteGraphs____astrocytes.ependymal_Astro2.pdf
EWCE/vignettes/BootstrapPlots/qqplot_wtGSym____VignetteGraphs____astrocytes.ependymal_Choroid.pdf
EWCE/vignettes/BootstrapPlots/qqplot_wtGSym____VignetteGraphs____astrocytes.ependymal_Epend.pdf
EWCE/vignettes/BootstrapPlots/qqplot_wtGSym____VignetteGraphs____endothelial.mural_Vsmc.pdf
EWCE/vignettes/BootstrapPlots/qqplot_wtGSym____VignetteGraphs____microglia_Mgl1.pdf
EWCE/vignettes/BootstrapPlots/qqplot_wtGSym____VignetteGraphs____microglia_Mgl2.pdf
EWCE/vignettes/BootstrapPlots/qqplot_wtGSym____VignetteGraphs____microglia_Pvm1.pdf
EWCE/vignettes/BootstrapPlots/qqplot_wtGSym____VignetteGraphs____microglia_Pvm2.pdf
EWCE/vignettes/BootstrapPlots/qqplot_wtGSym____VignetteGraphs____oligodendrocytes_Oligo2.pdf
EWCE/vignettes/BootstrapPlots/qqplot_wtGSym____VignetteGraphs____oligodendrocytes_Oligo3.pdf
EWCE/vignettes/BootstrapPlots/qqplot_wtGSym____VignetteGraphs____oligodendrocytes_Oligo6.pdf
EWCE/vignettes/BootstrapPlots/qqplot_wtGSym____VignetteGraphs____pyramidal.CA1_CA1PyrInt.pdf
EWCE/vignettes/EWCE.Rmd
EWCE/vignettes/EWCE.bib
EWCE/vignettes/EWCE_cache
EWCE/vignettes/EWCE_cache/html
EWCE/vignettes/EWCE_cache/html/__packages
EWCE/vignettes/EWCE_cache/html/unnamed-chunk-14_4411e5f4113b952f3920425bdf252363.RData
EWCE/vignettes/EWCE_cache/html/unnamed-chunk-14_4411e5f4113b952f3920425bdf252363.rdb
EWCE/vignettes/EWCE_cache/html/unnamed-chunk-14_4411e5f4113b952f3920425bdf252363.rdx
EWCE/vignettes/nature.csl

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