General comments about the use of CASCADE

Author

Adriano Rutz

Published

July 9, 2025

This vignette describes the minimal requirements for Contextualization of untargeted Annotation with Semi-quantitative Charged Aerosol Detection for pertinent characterization of natural Extracts.

Pre-requisites

  • A file (.mzML) containing DDA MS data with an additional detector (PDA, ELSD, CAD)
  • A file (.csv) containing features, as obtained by mzmine
  • A file (.tsv) containing annotations, as obtained by TIMA

All coming steps admit you already installed cascade:

install.packages(
  "cascade",
  repos = c(
    "https://adafede.r-universe.dev",
    "https://bioc.r-universe.dev",
    "https://cloud.r-project.org"
  )
)

More details

More details are available in the following vignettes:

Citation

BibTeX citation:
@online{rutz2025,
  author = {Rutz, Adriano},
  title = {General Comments about the Use of {CASCADE}},
  date = {2025-07-09},
  url = {https://adafede.github.io/cascade/vignettes/cascade.html},
  langid = {en}
}
For attribution, please cite this work as:
Rutz, Adriano. 2025. “General Comments about the Use of CASCADE.” July 9, 2025. https://adafede.github.io/cascade/vignettes/cascade.html.