Data processing programs for MS-based metabolomic analysis.

Desktop app
Yet Another Mass… Yet Another Mass Spectrometry Software

yamss Yet Another Mass Spectrometry Software

Analyze and visualize high-throughput metabolomics data aquired using…

Analyze and visualize high-throughput metabolomics data aquired using chromatography-mass spectrometry. yamss preprocess data in a way that enables reliable and powerful differential analysis.…

Desktop app
BatMass BatMass

BatMass

A software package which allows to perform quick quality control of raw LC/MS…

A software package which allows to perform quick quality control of raw LC/MS data through its fast visualization capabilities. BatMass also serves as a testbed for developers of LC/MS data…

Desktop app
intelligent… intelligent Metabolomic Quantitation

iMet-Q intelligent Metabolomic Quantitation

An automated tool with friendly user interfaces for quantifying metabolites in…

An automated tool with friendly user interfaces for quantifying metabolites in full-scan liquid chromatography-mass spectrometry (LC-MS) data. iMet-Q has a complete quantitation procedure for noise…

Desktop app
MSPrep MSPrep

MSPrep

An R package for post-processing of metabolomic data. The primary functions of…

An R package for post-processing of metabolomic data. The primary functions of the MSPrep package are summarization of replicates, filtering, imputation of missing data, normalization and/or batch…

Desktop app
QCScreen QCScreen

QCScreen

Offers a quick and easy data quality check of liquid chromatography-high…

Offers a quick and easy data quality check of liquid chromatography-high resolution mass spectrometry (LC-HRMS) derived data. QCScreen allows a flexible investigation and comparison of basic…

Desktop app
IsoCor IsoCor

IsoCor

A scientific software tool designed for the purpose of isotope labeling…

A scientific software tool designed for the purpose of isotope labeling experiments (ILE). IsoCor correct raw MS data (isotopic clusters) for the contribution of all naturally abundant isotopes. The…

Desktop app
Isotope Correction… Isotope Correction Toolbox

ICT Isotope Correction Toolbox

A program that corrects tandem mass isotopomer data from tandem mass…

A program that corrects tandem mass isotopomer data from tandem mass spectrometry experiments. ICT supports numerous features, including but not limited to batch processing, considering the purity of…

Desktop app
TargetSearch TargetSearch

TargetSearch

An open source tool which is a flexible and accurate method for pre-processing…

An open source tool which is a flexible and accurate method for pre-processing very large numbers of GC-MS samples within hours. A novel strategy was developed to iteratively correct and update…

Desktop app
MetaboliteDetector MetaboliteDetector

MetaboliteDetector

A software tool for the efficient and automatic analysis of GC/MS-based…

A software tool for the efficient and automatic analysis of GC/MS-based metabolomics data. Starting with raw MS data, MetaboliteDetector detects and subsequently identifies potential metabolites.…

Desktop app
TagFinder TagFinder

TagFinder

A software tool for the alignment of large GC-MS-based metabolite profiling…

A software tool for the alignment of large GC-MS-based metabolite profiling experiments into statistically accessible data matrices. The matrix generation is directed by co-analysis of retention…

MzJava MzJava

MzJava

An open-source Java library for the analysis of mass spectrometry data from…

An open-source Java library for the analysis of mass spectrometry data from large scale proteomics and glycomics experiments. MzJava provides data structures and algorithms for representing and…

Desktop app
GridMass GridMass

GridMass

An efficient algorithm for 2D feature detection. GridMass is based on landing…

An efficient algorithm for 2D feature detection. GridMass is based on landing probes across the chromatographic space that are moved to find local maxima providing accurate boundary estimations.…

Desktop app
MetTailor MetTailor

MetTailor

A software package which implements two post-extraction processing steps…

A software package which implements two post-extraction processing steps including a method for block-wise quantitative summary and a novel normalization procedure. There are a number of experimental…

Desktop app
MS-DIAL MS-DIAL

MS-DIAL

A total solution to deal with not only data dependent MS/MS but also data…

A total solution to deal with not only data dependent MS/MS but also data independent MS/MS experiments for metabolomics and lipidomics. Its feature is 1) implementing de-convolution method for data…

Desktop app
Isotopologue… Isotopologue Parameter Optimization

IPO Isotopologue Parameter Optimization

Optimizes XCMS peak picking parameters by using natural, stable 13C isotopic…

Optimizes XCMS peak picking parameters by using natural, stable 13C isotopic peaks to calculate a peak picking score. Retention time correction is optimized by minimizing relative retention time…

Desktop app
MetMSLine MetMSLine

MetMSLine

Represents a complete collection of functions in the R programming language as…

Represents a complete collection of functions in the R programming language as an accessible GUI for biomarker discovery in large-scale liquid-chromatography high-resolution mass spectral datasets…

Desktop app
X13CMS X13CMS

X13CMS

An extension of the widely used mass spectrometry-based metabolomic software…

An extension of the widely used mass spectrometry-based metabolomic software package XCMS. X(13)CMS uses the XCMS platform to detect metabolite peaks and perform retention-time alignment in liquid…

Desktop app
decoMS2 decoMS2

decoMS2

A two-part approach for performing metabolomic identifications. First, MS(2)…

A two-part approach for performing metabolomic identifications. First, MS(2) scans are collected with less stringent isolation settings to obtain improved sensitivity at the expense of specificity.…

Desktop app
METabolite COmpound… METabolite COmpound Feature Extraction and…

MET-COFEA METabolite COmpound Feature Extraction and Annotation

A liquid chromatography/mass spectrometry (LC/MS) data processing and analysis…

A liquid chromatography/mass spectrometry (LC/MS) data processing and analysis platform. MET-COFEA detects and clusters chromatographic peak features for each metabolite compound by first…

Desktop app
Metabolomics… Metabolomics Ion-based Data Extraction Algorithm

MET-IDEA Metabolomics Ion-based Data Extraction Algorithm

A current and significant limitation to metabolomics is the large-scale,…

A current and significant limitation to metabolomics is the large-scale, high-throughput conversion of raw chromatographically coupled mass spectrometry datasets into organized data matrices…

Desktop app
Web app
Normalyzer Normalyzer

Normalyzer

Normalizes the uploaded data using twelve different well known normalization…

Normalizes the uploaded data using twelve different well known normalization methods and compares the resulting data based on quantitative and qualitative parameters. Normalyzer is completely…

Desktop app
Metab Metab

Metab

An R package for high-throughput processing of metabolomics data analysed by…

An R package for high-throughput processing of metabolomics data analysed by the Automated Mass Spectral Deconvolution and Identification System (AMDIS). In addition, it performs statistical…

Desktop app
MetabR MetabR

MetabR

A simple menu-driven program designed to aid researchers with no programming…

A simple menu-driven program designed to aid researchers with no programming background in statistical analysis of metabolomic data. MetabR implements linear mixed models to normalize metabolomic…

Desktop app
MetaboQC MetaboQC

MetaboQC

A quality control approach that is based on discrepancies between replicate…

A quality control approach that is based on discrepancies between replicate samples. It suggests the optimal parameters of peak-picking procedure and detects local discrepancies of the chromatogram…

Desktop app
XCMS XCMS

XCMS

An LC/MS-based data analysis approach which incorporates novel nonlinear…

An LC/MS-based data analysis approach which incorporates novel nonlinear retention time alignment, feature detection, and feature matching. The XCMS software reads and processes LC/MS data stored in…

Desktop app
xMSanalyzer xMSanalyzer

xMSanalyzer

A package of utilities for data extraction, quality control assessment,…

A package of utilities for data extraction, quality control assessment, detection of overlapping and unique metabolites in multiple datasets, and batch annotation of metabolites. xMSanalyzer…

Desktop app
Ionwinze Ionwinze

Ionwinze

Tool to pick out ion signals that discriminate two groups of samples (e.g.…

Tool to pick out ion signals that discriminate two groups of samples (e.g. diseased/healthy, resistant/susceptible) by quasi-datapoint-wise comparison using univariate statistic procedures.

Desktop app
apLCMS apLCMS

apLCMS

Designed for the processing of LC/MS based metabolomics data.

Designed for the processing of LC/MS based metabolomics data.

Desktop app
MarkerLynx MarkerLynx

MarkerLynx

Process Complex Metabonomic and Metabolomic Multivariate Data.

Process Complex Metabonomic and Metabolomic Multivariate Data.

Web app
XCMS Online XCMS Online

XCMS Online

A cloud-based metabolomic data processing platform that provides high-quality…

A cloud-based metabolomic data processing platform that provides high-quality metabolomic analysis in a user-friendly, web-based format.

Desktop app
MZmine MZmine

MZmine

An open-source software tool for mass-spectrometry data processing, with the…

An open-source software tool for mass-spectrometry data processing, with the main focus on LC-MS data. It is based on the original MZmine toolbox described in the 2006 Bioinformatics publication, but…

Desktop app
MetaboNexus Deprecated MetaboNexus

MetaboNexus

An interactive metabolomics data analysis platform that integrates…

An interactive metabolomics data analysis platform that integrates pre-processing of raw peak data with in-depth statistical analysis and metabolite identity search. MetaboNexus is designed to work…

Curators for Data preprocessing

  • Biswapriya Biswavas Misra's avatar image
    Biswapriya Biswavas Misra
    Department of Biology, Genetics…
Advertisements
Join Omic Community

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.