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IDSL.CSA (version 1.2)

Composite Spectra Analysis (CSA) for High-Resolution Mass Spectrometry Analyses

Description

A fragmentation spectra detection pipeline for high-throughput LC/HRMS data processing using peaklists generated by the 'IDSL.IPA' workflow . The 'IDSL.CSA' package can deconvolute fragmentation spectra from Composite Spectra Analysis (CSA), Data Dependent Acquisition (DDA) analysis, and various Data-Independent Acquisition (DIA) methods such as MS^E, All-Ion Fragmentation (AIF) and SWATH-MS analysis. The 'IDSL.CSA' package was introduced in .

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Install

install.packages('IDSL.CSA')

Monthly Downloads

178

Version

1.2

License

MIT + file LICENSE

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Maintainer

Dinesh Barupal

Last Published

June 29th, 2023

Functions in IDSL.CSA (1.2)

IDSL.CSA_workflow

IDSL.CSA workflow
IDSL.CSA_xlsxAnalyzer

IDSL.CSA workflow xlsx Analyzer
DIA_MS2_fragmentationPeakDetection

CSA DIA MS2 Fragmentation Peaks Detection
DIA_MS1_fragmentationPeakDetection

CSA DIA MS1 Fragmentation Peaks Detection
DDA2msp

DDA to msp
IDSL.CSA_referenceMSPgenerator

IDSL.CSA Reference MSP Generator
IDSL.CSA_MSPgenerator

IDSL.CSA MSP Generator
CSA_fragmentationPeakDetection

CSA peakList MSP generation
positiveAdducts

positive adducts
DDA_workflow

DDA Workflow
DDA_xlsxAnalyzer

xlsx Analyzer for DDA analysis
CSA_xlsxAnalyzer

CSA xlsx Analyzer
CSA_reference_xlsxAnalyzer

CSA reference xlsxAnalyzer
CSA_adductAnnotator

CSA Adduct Annotator
CSA_alignedMetaSpectraCataloger

CSA Aligned Meta-Spectra Cataloger
CSA_workflow

CSA workflow
CSA_PARAM_SPEC

CSA PARAM SPEC
CSA_alignedPeaksTanimotoCoefficientCalculator

CSA Aligned Peaks Tanimoto Coefficient Calculator
CSA_AlignedTable_xlsxAnalyzer

CSA Aligned Table xlsx Analyzer
DIA_workflow

DIA Workflow
DDA_fragmentationPeakDetection

DDA Fragmentation Peaks Detection
DDA_rawSpectraDeconvolution

DDA Raw Spectra Deconvolution
DIA_xlsxAnalyzer

DIA xlsx Analyzer for DIA analysis
aligned_fragmentation_spectra_annotator

Aligned Fragmentation Spectra Annotator
negativeAdducts

negative adducts