scrnaseq-human: scRNA-seq, human dataset results

In stephaniehicks/benchmarkfdrData2019: Data and Benchmarking Results from Korthauer and Kimes et al. (2019)

scRNA-seq, human dataset results

Description

Results for case study on single-cell RNA-seq differential expression analysis using data from diffuse neoplastic infiltrating cells at the migrating front of human glioblastoma as described in Korthauer and Kimes et al. (2019). Differential expression was testing using either the MAST package, scDD package, or Wilcoxon rank-sum test.

Arguments

metadata

logical whether to load metadata (TRUE) or full resource (FALSE). (default = FALSE)

Details

Results for this case study include:

• human-benchmark-mast-det: testing with MAST, using detection rate as covariate.

• human-benchmark-mast-mean: testing with MAST, using mean counts as covariate.

• human-benchmark-mast-uninf: testing with MAST, using uninformative covariate.

• human-benchmark-scdd-det: testing with scDD, using detection rate as covariate.

• human-benchmark-scdd-mean: testing with scDD, using mean counts as covariate.

• human-benchmark-scdd-uninf: testing with scDD, using uninformative covariate.

• human-benchmark-wilcox-det: testing with Wilcoxon rank-sum, using detection rate as covariate.

• human-benchmark-wilcox-mean: testing with Wilcoxon rank-sum, using mean counts as covariate.

• human-benchmark-wilcox-uninf: testing with Wilcoxon rank-sum, using uninformative covariate.

See Also

scrnaseq-mouse

Examples

`human-benchmark-mast-det`(metadata = TRUE)

## Not run: 
`human-benchmark-mast-det`()
`human-benchmark-mast-mean`()
`human-benchmark-mast-uninf`()
`human-benchmark-scdd-det`()
`human-benchmark-scdd-mean`()
`human-benchmark-scdd-uninf`()
`human-benchmark-wilcox-det`()
`human-benchmark-wilcox-mean`()
`human-benchmark-wilcox-uninf`()

## End(Not run)

stephaniehicks/benchmarkfdrData2019 documentation built on April 13, 2025, 9:02 p.m.