dsCutoffPlot: Plot Cumulative Distribution of Reads per Cell Barcode
In farrellja/URD: URD
Description
To determine the number of cells recovered in a Dropseq sample, the cumulative
distribution of the number of reads recovered per unique cell barcode is plotted.
The elbow in the curve suggests the boundary between "real cells" with many reads
and "ambient RNA" that has bound to the remainder of the beads (which have few reads).
Usage
1
dsCutoffPlot(gz.in, n.cells = NULL, main = "", xmax = 5000)
Arguments
gz.in
(Character) Path to Dropseq cell read counts report (".report_cell_readcounts.txt.gz")
n.cells
(Numeric) Draw a line at putative number of cells to use downstream
main
(Character) Title for the plot
xmax
(Numeric) Max value of plot x-axis
farrellja/URD documentation built on June 17, 2020, 4:48 a.m.
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Description
To determine the number of cells recovered in a Dropseq sample, the cumulative distribution of the number of reads recovered per unique cell barcode is plotted. The elbow in the curve suggests the boundary between "real cells" with many reads and "ambient RNA" that has bound to the remainder of the beads (which have few reads).
Usage
1 | dsCutoffPlot(gz.in, n.cells = NULL, main = "", xmax = 5000)
|
Arguments
gz.in |
(Character) Path to Dropseq cell read counts report (".report_cell_readcounts.txt.gz") |
n.cells |
(Numeric) Draw a line at putative number of cells to use downstream |
main |
(Character) Title for the plot |
xmax |
(Numeric) Max value of plot x-axis |
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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