getNTAI.norm: Compute the number of non-telomeric allelic imbalance (NTAI)...
In maxwell-lab/HRDex:
Description
Usage
Arguments
Details
Value
Examples
Description
Compute the number of non-telomeric allelic imbalance (NTAI) events
Usage
1
getNTAI.norm(seq.dat, CN.dat, min.seg.size = 1.1e+07)
Arguments
seq.dat
the data.frame of sequencing data
CN.dat
the data.frame of copy number information
min.seg.size
the minimum segment size
Details
raw NTAI is calculated as the number of segments where the segment size is greater than the
minimum segment size; allelic imbalance is present; the segment does not cross the centromere; and the
segment is not in either of the telomeres. NTAI is normalized by removing all main copy number segments.
Value
the number of NTAI events
Examples
1
2
3
4
5
seq.dat <- preprocessHRD( seq.dat )
CN.dat <- getCNt( seq.dat )
## the number of NTAI events in seq.dat
ntai <- getNTAI.norm( seq.dat, CN.dat)
maxwell-lab/HRDex documentation built on May 3, 2020, 9:01 p.m.
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Description Usage Arguments Details Value Examples
Description
Compute the number of non-telomeric allelic imbalance (NTAI) events
Usage
1 | getNTAI.norm(seq.dat, CN.dat, min.seg.size = 1.1e+07)
|
Arguments
seq.dat |
the data.frame of sequencing data |
CN.dat |
the data.frame of copy number information |
min.seg.size |
the minimum segment size |
Details
raw NTAI is calculated as the number of segments where the segment size is greater than the minimum segment size; allelic imbalance is present; the segment does not cross the centromere; and the segment is not in either of the telomeres. NTAI is normalized by removing all main copy number segments.
Value
the number of NTAI events
Examples
1 2 3 4 5 | seq.dat <- preprocessHRD( seq.dat )
CN.dat <- getCNt( seq.dat )
## the number of NTAI events in seq.dat
ntai <- getNTAI.norm( seq.dat, CN.dat)
|
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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