Package: crisprShiny 1.3.0

Jean-Philippe Fortin

crisprShiny: Exploring curated CRISPR gRNAs via Shiny

Provides means to interactively visualize guide RNAs (gRNAs) in GuideSet objects via Shiny application. This GUI can be self-contained or as a module within a larger Shiny app. The content of the app reflects the annotations present in the passed GuideSet object, and includes intuitive tools to examine, filter, and export gRNAs, thereby making gRNA design more user-friendly.

Authors:Jean-Philippe Fortin [aut, cre], Luke Hoberecht [aut]

crisprShiny_1.3.0.tar.gz
crisprShiny_1.3.0.zip(r-4.5)crisprShiny_1.3.0.zip(r-4.4)crisprShiny_1.1.0.zip(r-4.3)
crisprShiny_1.3.0.tgz(r-4.4-any)crisprShiny_1.1.0.tgz(r-4.3-any)
crisprShiny_1.3.0.tar.gz(r-4.5-noble)crisprShiny_1.3.0.tar.gz(r-4.4-noble)
crisprShiny_1.3.0.tgz(r-4.4-emscripten)crisprShiny_1.1.0.tgz(r-4.3-emscripten)
crisprShiny.pdf |crisprShiny.html✨
crisprShiny/json (API)
NEWS

# Install 'crisprShiny' in R:
install.packages('crisprShiny', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/crisprverse/crisprshiny/issues

Datasets:
  • guideSetExample_basic - Example of a GuideSet object storing gRNA sequences targeting the CDS of the human gene KRAS
  • guideSetExample_kras - Example of a GuideSet object storing gRNA sequences targeting the CDS of the human gene KRAS
  • guideSetExample_kras_be - Example of a GuideSet object storing gRNA sequences targeting the CDS of the human gene KRAS
  • guideSetExample_ntcs - Example of a GuideSet object storing gRNA sequences targeting the CDS of the human gene KRAS and NTCs
  • tooltipAnnotation - List of tooltip annotations
  • tss_kras - Example of a 'GenomicRanges' object storing annotated TSS ranges for the human gene KRAS
  • txdb_kras - Example of a 'CompressedGenomicRangesList' object storing annotated ranges for the human gene KRAS

On BioConductor:crisprShiny-1.3.0(bioc 3.21)crisprShiny-1.2.0(bioc 3.20)

crisprfunctionalgenomicsgenetargetguicrispr-analysiscrispr-designshiny

4.85 score 2 stars 8 scripts 140 downloads 3 exports 184 dependencies

Last updated 23 days agofrom:d16fcf636d. Checks:OK: 1 NOTE: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 19 2024
R-4.5-winNOTENov 19 2024
R-4.5-linuxNOTENov 19 2024
R-4.4-winNOTENov 19 2024
R-4.4-macNOTENov 19 2024
R-4.3-winNOTESep 25 2024
R-4.3-macNOTESep 25 2024

Exports:crisprServercrisprShinycrisprUI

Dependencies:abindAnnotationDbiAnnotationFilterAnnotationHubaskpassbackportsbase64encbasiliskbasilisk.utilsBHBiobaseBiocFileCacheBiocGenericsBiocIOBiocManagerBiocParallelBiocVersionbiomaRtBiostringsbiovizBasebitbit64bitopsblobBSgenomebslibcachemcheckmateclicliprclustercodetoolscolorspacecommonmarkcpp11crayoncrisprBasecrisprBowtiecrisprDesigncrisprScorecrisprScoreDatacrisprVizcrosstalkcurldata.tableDBIdbplyrDelayedArraydeldirdichromatdigestdir.expirydplyrDTensembldbevaluateExperimentHubfansifarverfastmapfilelockfontawesomeforeignformatRFormulafsfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesggplot2gluegridExtragtableGvizherehighrHmischmshtmlTablehtmltoolshtmlwidgetshttpuvhttrhttr2interpIRangesisobandjpegjquerylibjsonliteKEGGRESTknitrlabelinglambda.rlaterlatticelatticeExtralazyevallifecyclemagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimemunsellnlmennetopensslpillarpkgconfigplogrpngprettyunitsprogresspromisesProtGenericspurrrpwalignR6randomForestrappdirsRbowtieRColorBrewerRcppRcppEigenRcppTOMLRCurlreadrrestfulrreticulateRhtslibrjsonrlangrmarkdownrpartrprojrootRsamtoolsRSQLiterstudioapirtracklayerS4ArraysS4VectorssassscalesshinyshinyBSshinyjssnowsourcetoolsSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselecttinytextxdbmakertzdbUCSC.utilsutf8VariantAnnotationvctrsviridisviridisLitevroomwaiterwithrxfunXMLxml2xtableXVectoryamlzlibbioc

Introduction to crisprShiny

Luke Hoberecht, Jean-Philippe Fortin

Rendered fromintro.Rmdusingknitr::rmarkdownon Nov 19 2024.

Last update: 2023-10-19
Started: 2023-07-26