germlineOutliers: Identify genomic regions with outlier preprocess read depth...
In cancer-genomics/trellis: Somatic structural variant analysis
View source: R/germlineOutliers.R
germlineOutliers R Documentation
Identify genomic regions with outlier preprocess read depth
estimates from the lymphoblast cell lines
Description
For each 1kb bin along the genome, we assess whether two or more
ovarian samples have a preprocessed read depth estimate that is
more than NMADs from zero.
Usage
germlineOutliers(pviews, NMAD = 5)
Arguments
pviews
a PreprocessViews2 object
NMAD
a length-one numeric vector indicating the number of
mads from zero
Details
REFACTOR: Each major directory in the DataPaths should have a final
subdirectory with a views object.
Value
a GRanges object of the reduced outlier genomic intervals
cancer-genomics/trellis documentation built on Feb. 2, 2023, 7:04 p.m.
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View source: R/germlineOutliers.R
| germlineOutliers | R Documentation |
Identify genomic regions with outlier preprocess read depth estimates from the lymphoblast cell lines
Description
For each 1kb bin along the genome, we assess whether two or more
ovarian samples have a preprocessed read depth estimate that is
more than NMADs from zero.
Usage
germlineOutliers(pviews, NMAD = 5)
Arguments
pviews |
a |
NMAD |
a length-one numeric vector indicating the number of mads from zero |
Details
REFACTOR: Each major directory in the DataPaths should have a final subdirectory with a views object.
Value
a GRanges object of the reduced outlier genomic intervals
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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