getAneuploidy: Compute the aneuploidy score for a given chromosome
In maxwell-lab/HRDex:
Description
Usage
Arguments
Details
See Also
Description
Compute the aneuploidy score for a given chromosome
Usage
1
2
getAneuploidy(seq.dat, ploidy.dat, chr, ref = "grch37",
max.brk.len = 3e+06)
Arguments
seq.dat
the data.frame of sequencing data
ploidy.dat
the data.frame of ploidy data
chr
the chromosome of interest
Details
Aneuploidy status is defined as amplified if main copynumber > ploidy; neutral if main copy number and ploidy
are equal; and deleted if main copy number < ploidy. Segments are combined if the aneuploidy status of two adjacent
segments is equal, and the segments do not cross the centromere.
See Also
maxwell-lab/HRDex documentation built on May 3, 2020, 9:01 p.m.
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Description Usage Arguments Details See Also
Description
Compute the aneuploidy score for a given chromosome
Usage
1 2 | getAneuploidy(seq.dat, ploidy.dat, chr, ref = "grch37",
max.brk.len = 3e+06)
|
Arguments
seq.dat |
the data.frame of sequencing data |
ploidy.dat |
the data.frame of ploidy data |
chr |
the chromosome of interest |
Details
Aneuploidy status is defined as amplified if main copynumber > ploidy; neutral if main copy number and ploidy are equal; and deleted if main copy number < ploidy. Segments are combined if the aneuploidy status of two adjacent segments is equal, and the segments do not cross the centromere.
See Also
R Package Documentation
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