MetaMapp – Mapping and Visualizing Metabolomic data

MetaMapp

:: DESCRIPTION

MetaMapp is a tool to construct metabolomics network graphs from the chemical similarity and mass spectral similarity matrices and the KEGG reaction pair database.

::DEVELOPER

The Fiehn laboratory

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • WEb browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2012 May 16;13:99.
MetaMapp: mapping and visualizing metabolomic data by integrating information from biochemical pathways and chemical and mass spectral similarity.
Barupal DK, Haldiya PK, Wohlgemuth G, Kind T, Kothari SL, Pinkerton KE, Fiehn O.

MetaboAnalyst 5.0 – Metabolomic Data Analysis

MetaboAnalyst 5.0

:: DESCRIPTION

MetaboAnalyst is a comprehensive, Web-based tool designed for processing, analyzing, and interpreting metabolomic data. It handles most of the common metabolomic data types including compound concentration lists, spectral bin lists, peak lists, and raw MS spectra.

::DEVELOPER

the Wishart Research Group, University of Alberta

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • Java
  • R package
  • Apache Tomcat 6.0 or Glassfish v2/v3.

:: DOWNLOAD

 MetaboAnalyst

:: MORE INFORMATION

Citation

Xia, J., Mandal, R., Sinelnikov, I., Broadhurst, D., and Wishart, D.S. (2012)
MetaboAnalyst 2.0 – a comprehensive server for metabolomic data analysis .
Nucl. Acids Res. (2012) 40 (W1): W127-W133. doi: 10.1093/nar/gks374

MSPrep 1.1 – Post Processing of Metabolomic data

MSPrep 1.1

:: DESCRIPTION

MSPrep is an R package for post processing of metabolomic data. Performs summarization of replicates, filtering, imputation, normalization, generates diagnostic plots and outputs final analytic datasets for downstream analysis

::DEVELOPER

Katerina J. Kechris, Ph.D.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/Linux
  • R

:: DOWNLOAD

 MSPrep

:: MORE INFORMATION

Citation

MSPrep–summarization, normalization and diagnostics for processing of mass spectrometry-based metabolomic data.
Hughes G, Cruickshank-Quinn C, Reisdorph R, Lutz S, Petrache I, Reisdorph N, Bowler R, Kechris K.
Bioinformatics. 2014 Jan 1;30(1):133-4. doi: 10.1093/bioinformatics/btt589.

MBRole 2.0 – Enrichment Analysis of Metabolomic data

MBRole 2.0

:: DESCRIPTION

MBRole (Metabolites Biological Role) is a server that performs functional enrichment analysis of a list of chemical compounds derived from a metabolomics experiment, which allows this list to be interpreted in biological terms.

::DEVELOPER

[Computational Systems Biology Group @CNB-CSIC]

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

MBROLE 2.0-functional enrichment of chemical compounds.
López-Ibáñez J, Pazos F, Chagoyen M.
Nucleic Acids Res. 2016 Apr 15. pii: gkw253.

Chagoyen, M. and Pazos, F. (2011)
MBRole: enrichment analysis of metabolomic data
Bioinformatics 27: 730-731

Warpgroup 0.1.0 – Increased Precision of Metabolomic Data Processing by Consensus Integration Bound Analysis

Warpgroup 0.1.0

:: DESCRIPTION

Warpgroup is an R package for processing chromatography-mass spectrometry data.

::DEVELOPER

Patti Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / MacOsX / WIndows
  • R

:: DOWNLOAD

 Warpgroup

:: MORE INFORMATION

Citation:

Warpgroup: Increased Precision of Metabolomic Data Processing by Consensus Integration Bound Analysis.
Mahieu NG, Spalding J, Patti GJ.
Bioinformatics. 2015 Sep 30. pii: btv564.

Exit mobile version