Description Arguments Details See Also Examples
Results for case study on differential peak calling in human H3K4me3
ChIP-seq data from ENCODE described in Korthauer and Kimes et al. (2019).
Analyses were performed using either DESeq2
applied to predefined regions or with the csaw
package.
metadata |
logical whether to load metadata (TRUE) or full resource (FALSE). (default = FALSE) |
Results for this case study include:
h3k4me3-promoters-benchmark
: using predefined regions with mean coverage as covariate.
h3k4me3-csaw-benchmark
: using csaw with region width as covariate.
h3k4me3-csaw-uninf-benchmark
: using csaw with uninformative covariate.
h3k4me3-csaw-cov-benchmark
: using csaw with mean coverage as covariate.
1 2 3 4 5 6 7 8 9 | `h3k4me3-promoters-benchmark`(metadata = TRUE)
## Not run:
`h3k4me3-promoters-benchmark`()
`h3k4me3-csaw-benchmark`()
`h3k4me3-csaw-uninf-benchmark`()
`h3k4me3-csaw-cov-benchmark`()
## End(Not run)
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