squallms

This is the development version of squallms; for the stable release version, see squallms.

Speedy quality assurance via lasso labeling for LC-MS data

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DOI: 10.18129/B9.bioc.squallms

Bioconductor version: Development (3.23)

squallms is a Bioconductor R package that implements a "semi-labeled" approach to untargeted mass spectrometry data. It pulls in raw data from mass-spec files to calculate several metrics that are then used to label MS features in bulk as high or low quality. These metrics of peak quality are then passed to a simple logistic model that produces a fully-labeled dataset suitable for downstream analysis.

Author: William Kumler [aut, cre, cph] ORCID iD ORCID: 0000-0002-5022-8009

Maintainer: William Kumler <wkumler at uw.edu>

Citation (from within R, enter citation("squallms")):

Installation

To install this package, start R (version "4.6") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("squallms")

For older versions of R, please refer to the appropriate Bioconductor release.