Search Results for "mzxml"
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Showing 11 open source projects for "mzxml"
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The Sashimi project hosts the Trans-Proteomic Pipeline (TPP), a mature suite of tools for mass-spec (MS, MS/MS) based proteomics: statistical validation, quantitation, visualization, and converters from raw MS data to the open mzML/mzXML formats.
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Comet MS/MS search engine
Comet open source tandem mass spectrometry (MS/MS) search engine.
September 2021: the code repository has migrate to https://github.com/UWPR/Comet Comet is an open source tandem mass spectrometry (MS/MS) sequence database search engine. It identifies peptides by searching MS/MS spectra against sequences present in protein sequence databases. Comet currently exists as a simple Windows or Linux command line binary that only does MS/MS database search. Supported input formats are mzXML, mzML, ms2, and Thermo RAW files. Supported output formats are tab... -
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The Maltcms - Modular Application Toolkit for Chromatography Mass-Spectrometry is a JAVA API for preprocessing, alignment, analysis and visualization of data stored in open file formats used in Proteomics and Metabolomics research.
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iMet-Q (intelligent Metabolomic Quantitation) is an automated tool with friendly user interfaces for quantifying metabolites in full-scan liquid chromatography-mass spectrometry (LC-MS) data. It has a complete quantitation procedure for noise removal, peak detection and peak alignment. In addition to accurate quantitation, iMet-Q provides the charge states and isotope ratios of detected compounds. It accepts input data in netCDF, mzXML, and mzML format and exports quantitation results in csv...
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BiMS
BiMS (biclustering for mass spectrometry data) is a Java application d
BiMS (biclustering for mass spectrometry data) is a Java application designed to allow the application of biclustering algorithms to mass spectrometry datasets. Users can load their MS datasets and apply different clustering and biclustering algorithms (current version includes Bimax and BiBit). In adition, users can load raw datasets (in mzML or mzXML formats) and preprocess them using MALDIquant package and MassSpecWavelet. -
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Rthur converts mass spectrometry data in Thermo .RAW files to mzXML, an open data format supported by many proteomics applications and software pipelines. In contrast to other existing mzXML conversion utilities, Rthur uses Thermo Foundation 3.0 libraries and supports data produced by newer models of Thermo mass spectrometer. The program is specifically designed for use with Orbitrap Fusion data, and is also tested to be fully compatible with the LTQ Orbitrap and Q Exactive Plus.
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octave-ms
Collection of routines for manipulation with mass spectrometry data
octave-ms is a collection of IO routines for manipulation with mass spectrometry datasets for octave users. It can handle variety of MS storage file formats including MGF, DTA, PKL, MZXML, MZDATA and MZML, converts MS data from one format to another, extract scans from MS datasets. Combined with octave statistical packages, it can be easy implemented to perform stat tests on various parameters of spectrum. It requires working knowledge in Octave/Matlab. -
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A new software suite, ICPLQuant, has been developed to accurately quantify ICPL-labeled peptides on the MS level during LC-MALDI and peptide mass fingerprint experiments. A version for Orbitrap ESI MS is now available!
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Mass Spectrometry analysis Pipeline
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Spectre for mass spectrometry. (Quantitiave) analysis of multiple ls-ms(ms) runs, using mzXML import of raw data. (working on mzDATA). Provides filters, alignment- and export tools.
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PARPs database is a web-based tool whose features include experiment annotation, protein database searching, protein sequence management.Statistical validation, , visualization, and converters from raw MS data open mzXML mzData format
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