Package: RiboCrypt 1.18.0

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_1.18.0.tar.gz
RiboCrypt_1.18.0.zip(r-4.7-any)RiboCrypt_1.18.0.zip(r-4.6-any)RiboCrypt_1.18.0.zip(r-4.5-any)
RiboCrypt_1.18.0.tgz(r-4.6-any)RiboCrypt_1.18.0.tgz(r-4.5-any)
RiboCrypt_1.18.0.tar.gz(r-4.7-any)RiboCrypt_1.18.0.tar.gz(r-4.6-any)
RiboCrypt_1.18.0.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-release.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

6.26 score 6 stars 30 scripts 516 downloads 9 exports 173 dependencies

Last updated from:32b4c8b69c (on RELEASE_3_23). Checks:8 NOTE, 2 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksNOTE250
linux-develNOTE521
source / vignettesOK374
linux-releaseNOTE584
macos-releaseNOTE446
macos-oldrelNOTE341
windows-develNOTE420
windows-releaseNOTE487
windows-oldrelNOTE378
wasm-releaseOK230

Exports:browseRCcollection_dir_from_expcollection_path_from_expDEG_plotmake_rc_urlmultiOmicsPlot_animatemultiOmicsPlot_listmultiOmicsPlot_ORFikExpRiboCrypt_app

Dependencies:abindAnnotationDbiaskpassbase64encBHBiobaseBiocFileCacheBiocGenericsBiocIOBiocParallelbiomaRtbiomartrBiostringsbitbit64bitopsblobBSgenomebslibcachemcigarillocirclizeclicliprclueclustercodetoolscolorspacecommonmarkComplexHeatmapcowplotcpp11crayoncrosstalkcurldata.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