Showing 10 of total 10 results (show query)
wkumler
RaMS:R Access to Mass-Spec Data
R-based access to mass-spectrometry (MS) data. While many packages exist to process MS data, many of these make it difficult to access the underlying mass-to-charge ratio (m/z), intensity, and retention time of the files themselves. This package is designed to format MS data in a tidy fashion and allows the user perform the plotting and analysis.
Maintained by William Kumler. Last updated 5 months ago.
mass-spectrometry-datatidy-data
21.0 match 24 stars 8.78 score 84 scripts 5 dependents
bioc
xcms:LC-MS and GC-MS Data Analysis
Framework for processing and visualization of chromatographically separated and single-spectra mass spectral data. Imports from AIA/ANDI NetCDF, mzXML, mzData and mzML files. Preprocesses data for high-throughput, untargeted analyte profiling.
Maintained by Steffen Neumann. Last updated 2 days ago.
immunooncologymassspectrometrymetabolomicsbioconductorfeature-detectionmass-spectrometrypeak-detectioncpp
5.7 match 196 stars 14.31 score 984 scripts 11 dependentsbioc
mzR:parser for netCDF, mzXML and mzML and mzIdentML files (mass spectrometry data)
mzR provides a unified API to the common file formats and parsers available for mass spectrometry data. It comes with a subset of the proteowizard library for mzXML, mzML and mzIdentML. The netCDF reading code has previously been used in XCMS.
Maintained by Steffen Neumann. Last updated 1 months ago.
immunooncologyinfrastructuredataimportproteomicsmetabolomicsmassspectrometryzlibcpp
6.3 match 45 stars 12.77 score 204 scripts 44 dependents
idslme
IDSL.MXP:Parser for mzML, mzXML, and netCDF Files (Mass Spectrometry Data)
A tiny parser to extract mass spectra data and metadata table of mass spectrometry acquisition properties from mzML, mzXML and netCDF files introduced in <doi:10.1021/acs.jproteome.2c00120>.
Maintained by Dinesh Barupal. Last updated 2 years ago.
exposomegc-ms-datalc-ms-datalipidomicsmass-spectrometrymetabolomicsmzmlmzxmlnetcdf
14.3 match 5 stars 4.57 score 1 scripts 5 dependents
sgibb
readMzXmlData:Reads Mass Spectrometry Data in mzXML Format
Functions for reading mass spectrometry data in mzXML format.
Maintained by Sebastian Gibb. Last updated 2 years ago.
7.0 match 5 stars 4.83 score 15 scripts 6 dependents
janlisec
CorrectOverloadedPeaks:Correct Overloaded Peaks from GC-APCI-MS Data
Analyzes and modifies metabolomics raw data (generated using Gas Chromatography-Atmospheric Pressure Chemical Ionization-Mass Spectrometry) to correct overloaded signals, i.e. ion intensities exceeding detector saturation leading to a cut-off peak. Data in 'xcmsRaw' format are accepted as input and 'mzXML' files can be processed alternatively. Overloaded signals are detected automatically and modified using an Gaussian or an Isotopic-Ratio approach. Quality control plots are generated and corrected data are stored within the original 'xcmsRaw' or 'mzXML' respectively to allow further processing.
Maintained by Jan Lisec. Last updated 17 days ago.
7.1 match 3.18 score 5 scripts 1 dependentsbioc
MSnbase:Base Functions and Classes for Mass Spectrometry and Proteomics
MSnbase provides infrastructure for manipulation, processing and visualisation of mass spectrometry and proteomics data, ranging from raw to quantitative and annotated data.
Maintained by Laurent Gatto. Last updated 2 days ago.
immunooncologyinfrastructureproteomicsmassspectrometryqualitycontroldataimportbioconductorbioinformaticsmass-spectrometryproteomics-datavisualisationcpp
1.8 match 130 stars 12.81 score 772 scripts 36 dependentssgibb
MALDIquantForeign:Import/Export Routines for 'MALDIquant'
Functions for reading (tab, csv, Bruker fid, Ciphergen XML, mzXML, mzML, imzML, Analyze 7.5, CDF, mMass MSD) and writing (tab, csv, mMass MSD, mzML, imzML) different file formats of mass spectrometry data into/from 'MALDIquant' objects.
Maintained by Sebastian Gibb. Last updated 1 years ago.
csvexportimportmaldimass-spectrometrymsd-filesmzml
2.5 match 10 stars 7.26 score 40 scripts 3 dependents
maialba3
LipidMS:Lipid Annotation for LC-MS/MS DDA or DIA Data
Lipid annotation in untargeted LC-MS lipidomics based on fragmentation rules. Alcoriza-Balaguer MI, Garcia-Canaveras JC, Lopez A, Conde I, Juan O, Carretero J, Lahoz A (2019) <doi:10.1021/acs.analchem.8b03409>.
Maintained by M Isabel Alcoriza-Balaguer. Last updated 7 months ago.
3.4 match 2 stars 5.33 score 12 scripts 1 dependentsbioc
CluMSID:Clustering of MS2 Spectra for Metabolite Identification
CluMSID is a tool that aids the identification of features in untargeted LC-MS/MS analysis by the use of MS2 spectra similarity and unsupervised statistical methods. It offers functions for a complete and customisable workflow from raw data to visualisations and is interfaceable with the xmcs family of preprocessing packages.
Maintained by Tobias Depke. Last updated 5 months ago.
metabolomicspreprocessingclustering
1.2 match 10 stars 6.04 score 22 scripts