Package: panelcn.mops 1.27.0
Gundula Povysil
panelcn.mops: CNV detection tool for targeted NGS panel data
CNV detection tool for targeted NGS panel data. Extension of the cn.mops package.
Authors:
panelcn.mops_1.27.0.tar.gz
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panelcn.mops_1.27.0.tgz(r-4.4-any)panelcn.mops_1.27.0.tgz(r-4.3-any)
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panelcn.mops.pdf |panelcn.mops.html✨
panelcn.mops/json (API)
NEWS
| # Install 'panelcn.mops' in R: |
| install.packages('panelcn.mops', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
- control - GRanges object of countWindows with read counts for control samples as elementMetadata.
- countWindows - Result object of getWindows - a data.frame with the contents of the provided BED file with an additional gene name and exon name column
- read.width - Read width used for calculating RCs of test and control
- resultlist - Result object of runPanelcnMops - a list of instances of "CNVDetectionResult"
- test - GRanges object of countWindows with read counts for a test sample as elementMetadata.
On BioConductor:panelcn.mops-1.27.0(bioc 3.20)panelcn.mops-1.26.0(bioc 3.19)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 2 months agofrom:b787b21e3f
Exports:countBamListInGRangescreateResultTablegetWindowspanelcn.mopsplotBoxplotrunPanelcnMopssplitROIs
Dependencies:askpassBHBiobaseBiocGenericsBiocParallelBiostringsbitopscn.mopscodetoolscpp11crayoncurlformatRfutile.loggerfutile.optionsGenomeInfoDbGenomeInfoDbDataGenomicRangeshttrIRangesjsonlitelambda.rmimeopensslR6RhtslibRsamtoolsS4VectorssnowsysUCSC.utilsXVectorzlibbioc
