prep_cnvkit_seg: Read CNVkit CNV Segments
In pdiakumis/rock: Rocking R at UMCCR
Description
Usage
Arguments
Value
Examples
Description
Reads the cnvkit-call.cns file output by CNVkit and exports the
CNV segment coordinates.
Usage
1
prep_cnvkit_seg(cnvkit)
Arguments
cnvkit
Path to CNVkit cnvkit-call.cns file.
Value
A dataframe (tibble) with the following columns:
chrom: chromosome
start: start coordinate
end: end coordinate
tot_cn: total copy number estimate
Examples
1
2
cn <- system.file("extdata", "HCC2218_cnvkit-call.cns", package = "pebbles")
prep_cnvkit_seg(cn)
pdiakumis/rock documentation built on Oct. 12, 2020, 9:38 a.m.
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Description Usage Arguments Value Examples
Description
Reads the cnvkit-call.cns file output by CNVkit and exports the
CNV segment coordinates.
Usage
1 | prep_cnvkit_seg(cnvkit)
|
Arguments
cnvkit |
Path to CNVkit |
Value
A dataframe (tibble) with the following columns:
chrom: chromosome
start: start coordinate
end: end coordinate
tot_cn: total copy number estimate
Examples
1 2 | cn <- system.file("extdata", "HCC2218_cnvkit-call.cns", package = "pebbles")
prep_cnvkit_seg(cn)
|
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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