numberLinkingRP-methods: Calculate the number of read pairs that link two clusters of...
In cancer-genomics/trellis: Somatic structural variant analysis
numberLinkingRP R Documentation
Calculate the number of read pairs that link two clusters of improper reads
Description
Clusters of improper read pairs can be linked by the mates of the
improper reads that belong to these clusters. This function
computes the number of improperly paired reads that link two
clusters. The number of read pairs that would link two clusters in
a bona fide somatic rearrangement depends on the depth of
sequencing. For 30x coverage, we require at least 5 linking read
pairs.
Usage
numberLinkingRP(object)
## S4 method for signature 'Rearrangement'
numberLinkingRP(object)
## S4 method for signature 'RearrangementList'
numberLinkingRP(object)
Value
a numeric vector
cancer-genomics/trellis documentation built on Feb. 2, 2023, 7:04 p.m.
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.
| numberLinkingRP | R Documentation |
Calculate the number of read pairs that link two clusters of improper reads
Description
Clusters of improper read pairs can be linked by the mates of the improper reads that belong to these clusters. This function computes the number of improperly paired reads that link two clusters. The number of read pairs that would link two clusters in a bona fide somatic rearrangement depends on the depth of sequencing. For 30x coverage, we require at least 5 linking read pairs.
Usage
numberLinkingRP(object) ## S4 method for signature 'Rearrangement' numberLinkingRP(object) ## S4 method for signature 'RearrangementList' numberLinkingRP(object)
Value
a numeric vector
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.