Description Usage Arguments Value Examples
Reads the cnvkit.cnr
file output by CNVkit and outputs its
depth
column into a wiggle file for easy viewing in IGV.
1 | cnvkit_depth2igv(cnr, out_file = NULL, track_name = "val", col = "lightblue")
|
cnr |
Path to CNVkit's |
out_file |
Path to write output to. Needs to have a |
track_name |
Name of track to appear in IGV (default: "val"). |
col |
Colour name for the bars (default: lightblue). |
Invisible list with the modified cnr file and the track header.
1 2 3 4 5 | ## Not run:
cnr <- system.file("extdata", "HCC2218-cnvkit_chr22_1K.cnr", package = "pebbles")
cnvkit_depth2igv(cnr, out_file = "HCC2218.cov.wig", track_name = "HCC2218_coverage", col = "orange")
## End(Not run)
|
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