armlevel_alt | R Documentation |
Get all globally-altered chromosome arms.
armlevel_alt(segments, kit.coverage, threshold = 0.9)
segments |
A |
kit.coverage |
A |
threshold |
The minimum percentage of the arm to be considered as globally altered. Defaults to 80%. |
By default uses the sum of all alterations and set the arm as
globally altered if \>80% of the arm is altered. Does not account for
alteration type and copy number.
Will run the function trim_to_coverage
on the segments.
A list of globally-altered chromosome arms with the percentage of arm altered.
arms <- armlevel_alt(segs.chas_example, oncoscan_na33.cov, 0.9)
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