Package: BBCAnalyzer 1.43.0
Sarah Sandmann
BBCAnalyzer: BBCAnalyzer: an R/Bioconductor package for visualizing base counts
BBCAnalyzer is a package for visualizing the relative or absolute number of bases, deletions and insertions at defined positions in sequence alignment data available as bam files in comparison to the reference bases. Markers for the relative base frequencies, the mean quality of the detected bases, known mutations or polymorphisms and variants called in the data may additionally be included in the plots.
Authors:
BBCAnalyzer_1.43.0.tar.gz
BBCAnalyzer_1.43.0.zip(r-4.7)BBCAnalyzer_1.43.0.zip(r-4.6)BBCAnalyzer_1.43.0.zip(r-4.5)
BBCAnalyzer_1.43.0.tgz(r-4.6-any)BBCAnalyzer_1.43.0.tgz(r-4.5-any)
BBCAnalyzer_1.43.0.tar.gz(r-4.7-any)BBCAnalyzer_1.43.0.tar.gz(r-4.6-any)
BBCAnalyzer_1.43.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
BBCAnalyzer/json (API)
| # Install 'BBCAnalyzer' in R: |
| install.packages('BBCAnalyzer', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
On BioConductor:BBCAnalyzer-1.43.0(bioc 3.24)BBCAnalyzer-1.42.0(bioc 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
sequencingalignmentcoveragegeneticvariabilitysnp
Last updated from:f670748abb. Checks:1 ERROR, 4 NOTE, 2 OK, 3 WARNING. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 234 | ||
| linux-devel-x86_64 | NOTE | 490 | ||
| source / vignettes | OK | 575 | ||
| linux-release-x86_64 | NOTE | 462 | ||
| macos-release-arm64 | NOTE | 311 | ||
| macos-oldrel-arm64 | NOTE | 272 | ||
| windows-devel | WARNING | 405 | ||
| windows-release | WARNING | 436 | ||
| windows-oldrel | WARNING | 396 | ||
| wasm-release | OK | 196 |
Exports:analyzeBasesanalyzeBasesPlotOnly
Dependencies:abindAnnotationDbiaskpassBHBiobaseBiocBaseUtilsBiocGenericsBiocIOBiocParallelBiostringsbitbit64bitopsblobBSgenomecachemcigarilloclicodetoolscpp11crayoncurlDBIDelayedArrayfastmapformatRfutile.loggerfutile.optionsgenericsGenomicAlignmentsGenomicFeaturesGenomicRangesgluehttrIRangesjsonliteKEGGRESTlambda.rlatticelifecycleMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpkgconfigpngR6RCurlrestfulrRhtslibrjsonrlangRsamtoolsRSQLitertracklayerS4ArraysS4VectorsSeqinfosnowSparseArraySummarizedExperimentsysVariantAnnotationvctrsXMLXVectoryaml
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| BBCAnalyzer: an R/Bioconductor package for visualizing base counts | Bases By Cigar Analyzer Bases Coverage BasesByCigar Analyzer BasesByCigarAnalyzer BBCAnalyzer Cigar Analysis |
| Analyze the bases at all previously defined positions | analyze Bases analyzeBases |
| Plots the number of reads at all previously defined positions | analyze Bases Plot Only analyzeBasesPlotOnly |
