xci_qc: Plot cell fraction estimates
In SRenan/XCIR: XCI-inference

Description Usage Arguments Details Value

Plot cell fraction estimates from list of known XCI genes

1	xci_qc(xci_dt, xcig = NULL, gene_names = "", color_col = NULL, xist = TRUE)

`xci_dt`	A `data.table`. The data to be used for the estimate of skewing (i.e: limited to XCI genes).
`xcig`	A `logical`. If `xci_dt` was not subset for training genes only, setting xcig to TRUE will filter the data.
`gene_names`	A `character`. If left blank, only genes that are further than 20 to "all", all genes will be named. Set to "none" to remove all annotations. Alternately, a `character` vector can be passed to annotate specific genes of interest.
`color_col`	A `character`. One of the columns of `xci_dt` can be used to color genes.
`xist`	A `logical`. Set to TRUE to display XIST in addition to the training genes.

This function is mostly used in betaBinomXI to ensure that the cell fraction is estimated properly. However, it can be used from the output of betaBinomXI to troubleshoot estimation issues.

The plot object in class ggplot.

SRenan/XCIR documentation built on Oct. 8, 2021, 3:11 a.m.