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jmzTab specifications


Unique identifier OMICS_04542
Name jmzTab
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS
Programming languages Java
License Apache License version 2.0
Computer skills Advanced
Version 3.0.2
Stability Stable
Source code URL
Maintained Yes



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  • person_outline Juan Antonio Vizcaíno <>

Additional information

Publication for jmzTab

jmzTab in publications

PMCID: 5499862
PMID: 28520864
DOI: 10.1093/gigascience/gix037

[…] targeting researchers outside of proteomics. it is supposed to contain the minimal information required to evaluate the results of a proteomics experiment, making it more accessible to non-experts. jmztab [] is a java application that provides reading and writing capabilities and conversion of files to mztab. the peakml [] file format is an initiative developed by the creators of mzmatch […]

PMCID: 4973685
PMID: 26037908
DOI: 10.1002/pmic.201400535

[…] released with a permissive apache 2.0 licence. the two packages both use jmzquantml for file reading and writing, and embed several external libraries or tools for file format conversion, including jmztab and the progenesis post‐processor (ppp) . the mzqviewer uses javafx for several plots and visualisations, and calls out to r routines for principal component analysis (pca) and heat map […]

PMCID: 4457114
PMID: 25726569
DOI: 10.1093/jamia/ocv001

[…] include support for the standards in tools. these software libraries provide reading/writing functionality and other extra features. they are jmzml, jtraml, jmzidentml, jmzquantml, mzidlibrary, and jmztab. many open-source software tools implement the standards. some of them were developed in java making use of these libraries, but other programming languages have also been used such as python […]

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jmzTab institution(s)
European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, UK; Department of Computer Science and Technology, Hubei University of Education, Wuhan, China; Division of Immunology, Allergy and Infectious Diseases, Department of Dermatology, Medical University of Vienna, Austria; Institute of Integrative Biology, University of Liverpool, Liverpool, UK
jmzTab funding source(s)
Supported by the EU FP7 grant ‘‘ProteomeXchange’’ (grant number 260558), the BBSRC grant number BB/I00095X/1, the BBSRC grant number BB/K01997X/1, the project No. 2010CDB01401, of the Natural Science Foundation of the Hubei Province (China), a Research Grant from the Educational Commission of the Hubei Province (No. Q20113001), the Wellcome Trust [grant number WT085949MA] and additionally by the Vienna Science and Technology Fund (WWTF) grant LS11 045.

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