glFrequency: Additional summary measured for the segments
In DNAcopy: DNA copy number data analysis
Description
Usage
Arguments
Value
Author(s)
Description
This program computes the frequency of gains and losses for each probe
as a function of level of mad.
Usage
1
glFrequency(xout, threshold=1)
Arguments
xout
an object of class DNAcopy
threshold
threshold value to call gain or loss
Value
A segment is called a gain or loss if the segment mean is at least the
threshold* mad distance away from the median copy number level. The
output is a data frame with five columns which give the chromosome
(chrom), genomic position (maploc), the number of samples with
available data (pfreq), and the gain (gain) and loss (loss).
Author(s)
Venkatraman E. Seshan
DNAcopy documentation built on Nov. 8, 2020, 5:48 p.m.
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Description Usage Arguments Value Author(s)
Description
This program computes the frequency of gains and losses for each probe as a function of level of mad.
Usage
1 | glFrequency(xout, threshold=1)
|
Arguments
xout |
an object of class DNAcopy |
threshold |
threshold value to call gain or loss |
Value
A segment is called a gain or loss if the segment mean is at least the threshold* mad distance away from the median copy number level. The output is a data frame with five columns which give the chromosome (chrom), genomic position (maploc), the number of samples with available data (pfreq), and the gain (gain) and loss (loss).
Author(s)
Venkatraman E. Seshan
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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