Package: pdInfoBuilder 1.71.0
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_1.71.0.tar.gz
pdInfoBuilder_1.71.0.zip(r-4.5)pdInfoBuilder_1.71.0.zip(r-4.4)pdInfoBuilder_1.71.0.zip(r-4.3)
pdInfoBuilder_1.71.0.tgz(r-4.4-x86_64)pdInfoBuilder_1.71.0.tgz(r-4.4-arm64)pdInfoBuilder_1.71.0.tgz(r-4.3-x86_64)pdInfoBuilder_1.71.0.tgz(r-4.3-arm64)
pdInfoBuilder_1.71.0.tar.gz(r-4.5-noble)pdInfoBuilder_1.71.0.tar.gz(r-4.4-noble)
pdInfoBuilder_1.71.0.tgz(r-4.4-emscripten)pdInfoBuilder_1.71.0.tgz(r-4.3-emscripten)
pdInfoBuilder.pdf |pdInfoBuilder.html✨
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-1.71.0(bioc 3.21)pdInfoBuilder-1.70.0(bioc 3.20)
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:0504fdc2b4. Checks:OK: 1 NOTE: 5 WARNING: 3. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Dec 18 2024 |
| R-4.5-win-x86_64 | WARNING | Nov 18 2024 |
| R-4.5-linux-x86_64 | NOTE | Dec 18 2024 |
| R-4.4-win-x86_64 | WARNING | Nov 18 2024 |
| R-4.4-mac-x86_64 | NOTE | Dec 18 2024 |
| R-4.4-mac-aarch64 | NOTE | Dec 18 2024 |
| R-4.3-win-x86_64 | WARNING | Nov 18 2024 |
| R-4.3-mac-x86_64 | NOTE | Dec 18 2024 |
| R-4.3-mac-aarch64 | NOTE | Dec 18 2024 |
Exports:cdf2tablechipNamegetGeometrymakePdInfoPackagesequenceParser
Dependencies:abindaffxparseraffyioaskpassBiobaseBiocGenericsBiocManagerBiostringsbitbit64blobcachemclicodetoolscpp11crayoncurlDBIDelayedArrayfastmapffforeachgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesgluehttrIRangesiteratorsjsonlitelatticelifecycleMatrixMatrixGenericsmatrixStatsmemoisemimeoligooligoClassesopensslpkgconfigplogrpreprocessCoreR6rlangRSQLiteS4ArraysS4VectorsSparseArraySummarizedExperimentsysUCSC.utilsvctrsXVectorzlibbioc
Building Annotation Packages with pdInfoBuilder for Use with the oligo Package
Rendered fromBuildingPDInfoPkgs.Rnwusingutils::Sweaveon Dec 18 2024.Last update: 2013-11-01
Started: 2013-11-01
PDInfo Package Building Affymetrix Mapping Chips
Rendered fromhowto-AffymetrixMapping.Rnwusingutils::Sweaveon Dec 18 2024.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 |
