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_1.3.0.tgz(r-4.5-any)crisprShiny_1.3.0.tgz(r-4.4-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.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'))

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

4.48 score 2 stars 8 scripts 140 downloads 3 exports 183 dependencies

Last updated 4 months agofrom:d16fcf636d. Checks:1 OK, 5 NOTE. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKFeb 17 2025
R-4.5-winNOTEFeb 17 2025
R-4.5-macNOTEFeb 17 2025
R-4.5-linuxNOTEFeb 17 2025
R-4.4-winNOTEFeb 17 2025
R-4.4-macNOTEFeb 17 2025

Exports:crisprServercrisprShinycrisprUI

Dependencies:abindAnnotationDbiAnnotationFilterAnnotationHubaskpassbackportsbase64encbasiliskbasilisk.utilsBHBiobaseBiocFileCacheBiocGenericsBiocIOBiocManagerBiocParallelBiocVersionbiomaRtBiostringsbiovizBasebitbit64bitopsblobBSgenomebslibcachemcheckmateclicliprclustercodetoolscolorspacecommonmarkcpp11crayoncrisprBasecrisprBowtiecrisprDesigncrisprScorecrisprScoreDatacrisprVizcrosstalkcurldata.tableDBIdbplyrDelayedArraydeldirdichromatdigestdir.expirydplyrDTensembldbevaluateExperimentHubfansifarverfastmapfilelockfontawesomeforeignformatRFormulafsfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesggplot2gluegridExtragtableGvizherehighrHmischmshtmlTablehtmltoolshtmlwidgetshttpuvhttrhttr2interpIRangesisobandjpegjquerylibjsonliteKEGGRESTknitrlabelinglambda.rlaterlatticelatticeExtralazyevallifecyclemagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimemunsellnlmennetopensslpillarpkgconfigplogrpngprettyunitsprogresspromisesProtGenericspurrrpwalignR6randomForestrappdirsRbowtieRColorBrewerRcppRcppEigenRcppTOMLRCurlreadrrestfulrreticulateRhtslibrjsonrlangrmarkdownrpartrprojrootRsamtoolsRSQLiterstudioapirtracklayerS4ArraysS4VectorssassscalesshinyshinyBSshinyjssnowsourcetoolsSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselecttinytextxdbmakertzdbUCSC.utilsutf8VariantAnnotationvctrsviridisviridisLitevroomwaiterwithrxfunXMLxml2xtableXVectoryaml

Introduction to crisprShiny

Luke Hoberecht, Jean-Philippe Fortin

Rendered fromintro.Rmdusingknitr::rmarkdownon Feb 17 2025.

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