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EWCE (version 1.0.2)

Expression Weighted Celltype Enrichment

Description

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.

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Version

Version

1.0.2

License

Artistic-2.0

Maintainer

Nathan Skene

Last Published

February 15th, 2017

Functions in EWCE (1.0.2)

tt_alzh_BA36

Example table of differential expression (Alzheimer's BA36)
tt_alzh_BA44

Example table of differential expression (Alzheimer's BA44)
generate.bootstrap.plots

Generate bootstrap plots
merged_ewce

Multiple EWCE results from multiple studies
celltype_data

Subset of genes from Linnarsson lab's cortex single cell transcriptome dataset
tt_alzh

Example table of differential expression (Alzheimer's BA46)
ewce_expression_data

Bootstrap celltype enrichment test for transcriptome data
add.res.to.merging.list

Add to results to merging list
bootstrap.enrichment.test

Bootstrap celltype enrichment test
mouse_to_human_homologs

Table of Human-->Mouse orthologs for all human genes
read_celltype_data

Read single cell transcriptome data
ewce.plot

Plot EWCE results
example_genelist

Example Gene list