joinNearGRanges: Merge adjacent amplicons that have a similar segment mean
In cancer-genomics/trellis: Somatic structural variant analysis
View source: R/amplicon-utils.R
joinNearGRanges R Documentation
Merge adjacent amplicons that have a similar segment mean
Description
Merges adjacent amplicons (<= 3kb separation) that have similar
segment means.
Usage
joinNearGRanges(object, params)
Arguments
object
a GRanges object
thr
a length-one numeric vector. If the difference of the average log
ratio for two segments is less than this number, combine the segments. The
segment mean of the merged GRanges will be the weighted average, where the
weights are the segment widths.
MIN_WIDTH
minimum size of amplicon (default 2000)
Details
Merging is performed by the reduce operation.
Value
a GRanges object of the merged segments
cancer-genomics/trellis documentation built on Feb. 2, 2023, 7:04 p.m.
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View source: R/amplicon-utils.R
| joinNearGRanges | R Documentation |
Merge adjacent amplicons that have a similar segment mean
Description
Merges adjacent amplicons (<= 3kb separation) that have similar segment means.
Usage
joinNearGRanges(object, params)
Arguments
object |
a |
thr |
a length-one numeric vector. If the difference of the average log ratio for two segments is less than this number, combine the segments. The segment mean of the merged GRanges will be the weighted average, where the weights are the segment widths. |
MIN_WIDTH |
minimum size of amplicon (default 2000) |
Details
Merging is performed by the reduce operation.
Value
a GRanges object of the merged segments
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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