Package: RiboCrypt 1.19.0

Michal Swirski

RiboCrypt: Interactive visualization in genomics

R Package for interactive visualization and browsing NGS data. It contains a browser for both transcript and genomic coordinate view. In addition a QC and general metaplots are included, among others differential translation plots and gene expression plots. The package is still under development.

Authors:Michal Swirski [aut, cre, cph], Haakon Tjeldnes [aut, ctb], Kornel Labun [ctb]

RiboCrypt_1.19.0.tar.gz
RiboCrypt_1.19.0.zip(r-4.7)RiboCrypt_1.19.0.zip(r-4.6)RiboCrypt_1.19.0.zip(r-4.5)
RiboCrypt_1.19.0.tgz(r-4.6-any)RiboCrypt_1.19.0.tgz(r-4.5-any)
RiboCrypt_1.19.0.tar.gz(r-4.7-any)RiboCrypt_1.19.0.tar.gz(r-4.6-any)
RiboCrypt_1.19.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
RiboCrypt/json (API)

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

Bug tracker:https://github.com/m-swirski/ribocrypt/issues

On BioConductor:RiboCrypt-1.19.0(bioc 3.24)RiboCrypt-1.18.0(bioc 3.23)

softwaresequencingriboseqrnaseq

6.56 score 6 stars 24 scripts 9 exports 174 dependencies

Last updated from:cbd1ebc4a0. Checks:8 NOTE, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE346
linux-devel-x86_64NOTE601
source / vignettesOK400
linux-release-x86_64NOTE567
macos-release-arm64NOTE323
macos-oldrel-arm64NOTE346
windows-develNOTE483
windows-releaseNOTE442
windows-oldrelNOTE470
wasm-releaseOK299

Exports:browseRCcollection_dir_from_expcollection_path_from_expDEG_plotmake_rc_urlmultiOmicsPlot_animatemultiOmicsPlot_listmultiOmicsPlot_ORFikExpRiboCrypt_app

Dependencies:abindAnnotationDbiaskpassbase64encBHBiobaseBiocBaseUtilsBiocFileCacheBiocGenericsBiocIOBiocParallelbiomaRtbiomartrBiostringsbitbit64bitopsblobBSgenomebslibcachemcigarillocirclizeclicliprclueclustercodetoolscolorspacecommonmarkComplexHeatmapcowplotcpp11crayoncrosstalkcurldata.tableDBIdbplyrDelayedArrayDESeq2digestdoParalleldownloaderdplyrDTevaluatefarverfastmapfilelockfontawesomeforeachformatRfsfstfstcorefutile.loggerfutile.optionsgenericsGenomeInfoDbGenomicAlignmentsGenomicFeaturesGenomicRangesGetoptLongggplot2GlobalOptionsgluegridExtragtablehighrhmshtmltoolshtmlwidgetshttpuvhttrhttr2IRangesisobanditeratorsjquerylibjsonliteKEGGRESTKernSmoothknitrlabelinglambda.rlaterlatticelazyevallifecyclelitedownlocfitmagrittrmarkdownMatrixMatrixGenericsmatrixStatsmemoisemimeNGLVieweRopensslORFikotelphilentropypillarpkgconfigplotlypngpoormanprettyunitsprogresspromisespurrrqs2R.methodsS3R.ooR.utilsR6rappdirsrclipboardRColorBrewerRcppRcppArmadilloRcppParallelRCurlreadrrestfulrRhtslibrjsonrlangrmarkdownRsamtoolsRSQLitertracklayerS4ArraysS4VectorsS7sassscalesSeqinfoshapeshinyshinycssloadersshinyhelpershinyjquishinyjsshinyWidgetssnowsourcetoolsSparseArraystringfishstringistringrSummarizedExperimentsystibbletidyrtidyselecttinytextxdbmakertzdbUCSC.utilsutf8vctrsviridisLitevroomwithrwritexlxfunXMLxml2xtableXVectoryaml

RiboCryptOverview
Introduction | Introduction to Ribo-seq | ORFik experiments | Interactive app | Data for app | App Format optimizations | Running the app | Creating browser window | Conclusion
Rendered fromRiboCrypt_overview.rmdusingknitr::rmarkdown

Last update: 2024-12-13
Started: 2021-10-19

App Tutorial
Rendered fromRiboCrypt_app_tutorial.rmdusingknitr::rmarkdown

Last update: 2023-01-27
Started: 2023-01-02