Package: pdInfoBuilder 1.77.0
Benilton Carvalho
pdInfoBuilder: Platform Design Information Package Builder
Builds platform design information packages. These consist of a SQLite database containing feature-level data such as x, y position on chip and featureSet ID. The database also incorporates featureSet-level annotation data. The products of this packages are used by the oligo pkg.
Authors:
pdInfoBuilder_1.77.0.tar.gz
pdInfoBuilder_1.77.0.zip(r-4.7)pdInfoBuilder_1.77.0.zip(r-4.6)pdInfoBuilder_1.77.0.zip(r-4.5)
pdInfoBuilder_1.77.0.tgz(r-4.6-x86_64)pdInfoBuilder_1.77.0.tgz(r-4.6-arm64)pdInfoBuilder_1.77.0.tgz(r-4.5-x86_64)pdInfoBuilder_1.77.0.tgz(r-4.5-arm64)
pdInfoBuilder_1.77.0.tar.gz(r-4.7-arm64)pdInfoBuilder_1.77.0.tar.gz(r-4.7-x86_64)pdInfoBuilder_1.77.0.tar.gz(r-4.6-arm64)pdInfoBuilder_1.77.0.tar.gz(r-4.6-x86_64)
pdInfoBuilder_1.77.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
pdInfoBuilder/json (API)
NEWS
| # Install 'pdInfoBuilder' in R: |
| install.packages('pdInfoBuilder', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
On BioConductor:pdInfoBuilder-1.77.0(bioc 3.24)pdInfoBuilder-1.76.0(bioc 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:aa4689f64f. Checks:1 ERROR, 11 NOTE, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 173 | ||
| linux-devel-arm64 | NOTE | 218 | ||
| linux-devel-x86_64 | NOTE | 286 | ||
| source / vignettes | OK | 212 | ||
| linux-release-arm64 | NOTE | 219 | ||
| linux-release-x86_64 | NOTE | 270 | ||
| macos-release-arm64 | NOTE | 151 | ||
| macos-release-x86_64 | NOTE | 501 | ||
| macos-oldrel-arm64 | NOTE | 140 | ||
| macos-oldrel-x86_64 | NOTE | 557 | ||
| windows-devel | NOTE | 222 | ||
| windows-release | NOTE | 210 | ||
| windows-oldrel | NOTE | 197 | ||
| wasm-release | OK | 114 |
Exports:cdf2tablechipNamegetGeometrymakePdInfoPackagesequenceParser
Dependencies:abindaffxparseraffyioBiobaseBiocGenericsBiocManagerBiostringsbitbit64blobcachemclicodetoolscpp11crayonDBIDelayedArrayfastmapffforeachgenericsGenomicRangesglueIRangesiteratorslatticelifecycleMatrixMatrixGenericsmatrixStatsmemoiseoligooligoClassespkgconfigpreprocessCorerlangRSQLiteS4ArraysS4VectorsSeqinfoSparseArraySummarizedExperimentvctrsXVector
Building Annotation Packages with pdInfoBuilder for Use with the oligo Package
Rendered fromBuildingPDInfoPkgs.Rnwusingutils::Sweaveon May 30 2026.Last update: 2013-11-01
Started: 2013-11-01
PDInfo Package Building Affymetrix Mapping Chips
Rendered fromhowto-AffymetrixMapping.Rnwusingutils::Sweaveon May 30 2026.Last update: 2013-11-01
Started: 2013-11-01
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Class "AffyClariomSPDInfoPkgSeed" | AffyClariomSPDInfoPkgSeed-class |
| Class "AffyExpressionPDInfoPkgSeed" | AffyExpressionPDInfoPkgSeed-class |
| Class "AffySNPCNVPDInfoPkgSeed" | AffySNPCNVPDInfoPkgSeed-class |
| Class "AffySNPCNVPDInfoPkgSeed2" | AffySNPCNVPDInfoPkgSeed2-class |
| Class "AffySNPPDInfoPkgSeed" | AffySNPPDInfoPkgSeed-class |
| Class "AffySNPPDInfoPkgSeed2" | AffySNPPDInfoPkgSeed2-class |
| Class "AffySTPDInfoPkgSeed" for the Sense Target gene-level array | AffyExonPDInfoPkgSeed-class AffyGenePDInfoPkgSeed-class |
| Class "AffyTilingPDInfoPkgSeed" | AffyTilingPDInfoPkgSeed-class |
| Helper functions to assist the creation of an annotation package for a generic array | cdf2table sequenceParser |
| Return an Official Chip/Platform Name | chipName chipName,AffyExpressionPDInfoPkgSeed-method chipName,AffyGeneric1PDInfoPkgSeed-method chipName,AffySNPCNVPDInfoPkgSeed-method chipName,AffySNPCNVPDInfoPkgSeed2-method chipName,AffySNPPDInfoPkgSeed-method chipName,AffySNPPDInfoPkgSeed2-method chipName,AffySTPDInfoPkgSeed-method chipName,AffyTilingPDInfoPkgSeed-method chipName,NimbleGenPDInfoPkgSeed-method |
| Return the Chip/Platform geometry | getGeometry getGeometry,AffyExpressionPDInfoPkgSeed-method getGeometry,AffySNPCNVPDInfoPkgSeed-method getGeometry,AffySNPPDInfoPkgSeed-method getGeometry,AffySTPDInfoPkgSeed-method getGeometry,AffyTilingPDInfoPkgSeed-method getGeometry,NimbleGenPDInfoPkgSeed-method |
| Create a Platform Design Info Package | makePdInfoPackage makePdInfoPackage,AffyClariomSPDInfoPkgSeed-method makePdInfoPackage,AffyExonPDInfoPkgSeed-method makePdInfoPackage,AffyExpressionPDInfoPkgSeed-method makePdInfoPackage,AffyGenePDInfoPkgSeed-method makePdInfoPackage,AffyHTAPDInfoPkgSeed-method makePdInfoPackage,AffyMiRNAPDInfoPkgSeed-method makePdInfoPackage,AffySNPCNVPDInfoPkgSeed-method makePdInfoPackage,AffySNPCNVPDInfoPkgSeed2-method makePdInfoPackage,AffySNPPDInfoPkgSeed-method makePdInfoPackage,AffySNPPDInfoPkgSeed2-method makePdInfoPackage,AffySTPDInfoPkgSeed-method makePdInfoPackage,AffyTilingPDInfoPkgSeed-method makePdInfoPackage,GenericPDInfoPkgSeed-method makePdInfoPackage,NgsExpressionPDInfoPkgSeed-method makePdInfoPackage,NgsTilingPDInfoPkgSeed-method |
| Class "NgsExpressionPDInfoPkgSeed" | NgsExpressionPDInfoPkgSeed-class |
| Class "NgsTilingPDInfoPkgSeed" | NgsTilingPDInfoPkgSeed-class |
| Class "NimbleGenPDInfoPkgSeed" | NimbleGenPDInfoPkgSeed-class |
