Plot fragment counts within a set of regions.
RegionPlot(
object,
key,
assay = NULL,
idents = NULL,
normalize = TRUE,
upstream = NULL,
downstream = NULL,
window = (upstream + downstream)/500,
nrow = NULL
)
object | A Seurat object |
---|---|
key | Name of key to pull data from. Stores the results from
|
assay | Name of assay to use. If a list or vector of assay names is
given, data will be plotted from each assay. Note that all assays must
contain |
idents | Cell identities to include. Note that cells cannot be
regrouped, this will require re-running |
normalize | Normalize by number of cells in each group |
upstream | Number of bases to include upstream of region. If NULL, use
all bases that were included in the |
downstream | Number of bases to include downstream of region. See
documentation for |
window | Smoothing window to apply |
nrow | Number of rows to use when creating plot. If NULL, chosen automatically by ggplot2 |
Returns a ggplot2 object
RegionMatrix