Package: cascade 0.0.0.9002

cascade: Contextualizing untargeted Annotation with Semi-quantitative Charged Aerosol Detection for pertinent characterization of natural Extracts

This package provides the infrastructure to perform Automated Composition Assessment of Natural Extracts.

Authors:Adriano Rutz [aut, cre]

cascade_0.0.0.9002.tar.gz
cascade_0.0.0.9002.zip(r-4.7)cascade_0.0.0.9002.zip(r-4.6)cascade_0.0.0.9002.zip(r-4.5)
cascade_0.0.0.9002.tgz(r-4.6-any)cascade_0.0.0.9002.tgz(r-4.5-any)
cascade_0.0.0.9002.tar.gz(r-4.7-any)cascade_0.0.0.9002.tar.gz(r-4.6-any)
cascade_0.0.0.9002.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
cascade/json (API)
NEWS

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

Bug tracker:https://github.com/adafede/cascade/issues

Pkgdown/docs site:https://adafede.github.io

On CRAN:

Conda:

metaboliteannotationchargedaerosoldetectorsemiquantitativenaturalproductscomputationalmetabolomicsspecializedmetabolomecharged-aerosol-detectorchemical-compositionlc-msmsmetabolite-annotationmetabolomicsnatural-extractsnatural-productsquarto

6.31 score 4 stars 1 packages 61 scripts 10 exports 147 dependencies

Last updated from:1facf91580 (on main). Checks:9 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64OK230
source / vignettesOK426
linux-release-x86_64OK234
macos-release-arm64OK261
macos-oldrel-arm64OK162
windows-develOK177
windows-releaseOK204
windows-oldrelOK185
wasm-releaseOK221

Exports:check_chromatograms_alignmentcheck_peaks_integrationgenerate_idsgenerate_pseudochromatogramsgenerate_tablesplot_timaprepare_tima_annotationsprocess_compare_peaksquery_wikidatataxon_name_to_qid

Dependencies:abindaffyaffyioAnnotationFilteraskpassbase64encbaselineBHbigDBiobaseBiocBaseUtilsBiocGenericsbiocmakeBiocManagerBiocParallelbitopsbslibcachemcaToolscliclueclustercodetoolscommonmarkcpp11crosstalkcurldata.tableDelayedArraydigestdir.expirydoParalleldplyrevaluatefarverfastmapfilelockfontawesomeforcatsforeachformatRfsfutile.loggerfutile.optionsgenericsGenomicRangesggplot2gluegtgtablehighrhtmltoolshtmlwidgetshttrhttr2igraphimputeIRangesisobanditeratorsjquerylibjsonlitejuicyjuiceknitrlabelinglambda.rlaterlatticelazyevallifecyclelimmalitedownmagrittrMALDIquantmarkdownMASSMatrixMatrixGenericsmatrixStatsmemoiseMetaboCoreUtilsmimeMsCoreUtilsMSnbaseMultiAssayExperimentmzIDmzRncdf4opensslotelpcaMethodspillarpkgconfigplotlyplyrpreprocessCorepromisesProtGenericsPSMatchPTModspurrrQFeaturesR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppreactablereactRreshape2Rhdf5librlangrmarkdownS4ArraysS4VectorsS7sassscalesSeqinfosnowSparseArraySparseMSpectrastatmodstringistringrSummarizedExperimentsystibbletidyrtidyselecttidytabletimatinytexutf8V8vctrsviridisLitevsnwithrxfunXMLxml2XVectoryaml

General comments about the use of CASCADE

Rendered fromcascade.qmdusingquarto::htmlon Jun 14 2026.

Last update: 2026-05-27
Started: 2024-11-04

Readme and manuals

Help Manual

Help pageTopics
Add chromato lineadd_chromato_line
Baseline chromatogrambaseline_chromatogram
Change intensity namechange_intensity_name
Check chromatogramscheck_chromatograms
Check chromatograms alignmentcheck_chromatograms_alignment
Check export dircheck_export_dir
Check chromatograms alignmentcheck_peaks_integration
Compare peakscompare_peaks
Derivderiv
Extract chromatogramextract_chromatogram
Extract MS peakextract_ms_peak
Extract MS progressextract_ms_progress
Filter FFTfilter_fft
Generate IDsgenerate_ids
Generate pseudochromatogramsgenerate_pseudochromatograms
Generate IDsgenerate_tables
Get peaksget_peaks
Hierarchies grouped progresshierarchies_grouped_progress
Hierarchies Progresshierarchies_progress
Improve signalimprove_signal
Improve signals progressimprove_signals_progress
Join peaksjoin_peaks
Keep best candidateskeep_best_candidates
Load annotationsload_annotations
Load chromatogramsload_chromatograms
Load featuresload_features
Load features informedload_features_informed
Load features not informedload_features_not_informed
Load MS dataload_ms_data
Load nameload_name
Make chromatographiablemake_chromatographiable
Make confidentmake_confident
Make no stereomake_no_stereo
Make othermake_other
Middle ptsmiddle_pts
Molinfomolinfo
No otherno_other
Normalize chromatonormalize_chromato
Normalize chromatograms listnormalize_chromatograms_list
P ACN Ip_acn_i
Peaks progresspeaks_progress
Plot histogramsplot_histograms
Plot histograms confidentplot_histograms_confident
Plot histograms littplot_histograms_litt
Plot histograms taxoplot_histograms_taxo
Plot peak detectionplot_peak_detection
Plot results 1plot_results_1
Plot TIMAplot_tima
Prepare comparisonprepare_comparison
Prepare featuresprepare_features
Prepare hierarchyprepare_hierarchy
Prepare mzprepare_mz
Prepare peaksprepare_peaks
Prepare plotprepare_plot
Prepare plot 2prepare_plot_2
Prepare rtprepare_rt
Prepare TIMA annotationsprepare_tima_annotations
Preprocess chromatogramspreprocess_chromatograms
Preprocess peakspreprocess_peaks
Process compare peaksprocess_compare_peaks
Queries progressqueries_progress
Query a SPARQL endpoint efficientlyquery_wikidata
Second dersecond_der
Signal sharpeningsignal_sharpening
Tables progresstables_progress
Taxon name to QIDtaxon_name_to_qid
Transform MStransform_ms
Treemaps progress no titletreemaps_progress_no_title
Wiki progresswiki_progress
Y as NAy_as_na