Software: Mass Spectrometry

 
mMass (Open Source Mass Spectrometry Tool) 5.2.0www.mmass.org

mMass (Open Source Mass Spectrometry Tool) presents open source multi-platform package of tools for precise mass spectrometric data analysis and interpretation. It is written in Python language and released under GNU General Public License, so it's portable to different computer platforms and has a good potential to be easily modified or extended by ...

Platform: WindowsBusiness- Databases & Tools
License: FreewareSize: 17.8 MBReleased: 26 February, 2013
Download: http://www.mmass.org
MMass - Mass Spectrometry - Mass Spec - Open Source
Mass spectrometry - DTA SuperCharge 1.3J.W. Gouw, Peter Mortensen, ONG_SE

Mass spectrometry - DTA SuperCharge is an application for converting one or more Finnigan .RAW files to Mascot search input files in a format suitable for use with MSQuant. This utility allows for batch processing of files (multiple RAW files at a time) and can be run independently of the Bioworks PC at the laboratory. It also generates DTAs for you, ...

Platform: WindowsBusiness- Other
License: FreewareSize: 1.3 MBReleased: 29 April, 2012
Download: http://www.pil.sdu.dk/1/MSQuantDynamics/DTASC,1.37,2009-02-19a.7z
Exact Mass 1.0home.kpn.nl

Exact Mass V1.0 is a freeware utility that accepts an exact mass as determined by Mass Spectrometry and lists possible compositions of the atoms S, O, N, C and H.

Platform: WindowsHome & Hobby- Other
License: FreewareSize: 195.0 KBReleased: 03 February, 2012
Download: http://home.kpn.nl/~vheeswijk/EM10.ZIP
imgGenerator 1.2msimaging.net

IMG file generation is a easy to use software tool that converts the mass spectrometry data files to IMG file. In the process of the generation, the progress bar show the information, Status bar show the current process file name. In the process of generation, to exit the program, you must stop the running at first.

Platform: WindowsSystem Utilities- Text/Document Editors
License: FreewareSize: 34.3 MBReleased: 28 May, 2012
Download: http://www.msimaging.net/downloadlast.php?t=imgGenerator_1.2.2_MultiLanguage_Setup.exe
DeconMSn 2.2Battelle PNNL

DeconMSn creates spectrum files for tandem mass spectrometry data. It can read Thermo Finnigan .Raw files (though you must separately install Xcalibur to obtain the required DLLS). Alternatively, the input data can be in the mzXML format. The program can process data from low resolution instruments (e.g. LCQ or LTQ) and from high resolution instruments ...

Platform: WindowsBusiness- Other
License: FreewareSize: 2.4 MBReleased: 28 June, 2012
Download: http://omics.pnl.gov/installers/DeconMSn_Installer.zip
wsearch32 1.6Wsearch Software

Wsearch32 is a Windows program that should run under Win2000 and WinXP and is a mass spectrometry program that can read over 20 different Mass spectral file formats. Wsearch32 is mainly used to display GC/MS data however this version will also display Electrospray data and MALDI -TOF data.
Please let me know what you think of the program, any ...

Platform: WindowsAudio & Multimedia- Other
License: FreewareSize: 1.2 MBReleased: 26 May, 2012
Download: http://www.wsearch.com.au/wsearch32/wsearch32.zip
Insilicos Viewer 1.5Insilicos LLC

Insilicos Viewer is a free viewer for mass spectrometry proteomics data, such as from MudPIT-type experiments. A new and easy to use software that you can get it for free on your computers.

This viewer can read mzXML, a mass spectrometry data format developed at the Institute for Systems Biology; mzData, developed by the HUPO PSI standards ...

Platform: WindowsGraphic Apps- Viewers
License: FreewareSize: 0Released: 14 June, 2012
Download: http://www.insilicos.com/products.html
MZmine 2.9mzmine.sourceforge.net

Mass spectrometry data analysis made easy. MZmine help you with differential analysis of mass spectrometry data.MZmine 2 can read and process both unit mass resolution and exact mass resolution (e.g. FTMS) data in both continuous and centroided modes, including fragmentation (MSn) scans.Visualization
MZmine 2 can visualize your raw data together ...

Platform: WindowsGraphic Apps- CAD
License: FreewareSize: 76.0 MBReleased: 22 March, 2013
Download: http://mzmine.sourceforge.net
MSight 3.0.1www.expasy.org

MSight is a new vision in Mass Spectrometry Imaging. MSight, created by the Proteome Informatics Group, was specifically developed for the representation of mass spectra along with data from the separation step. The program allows graphical exploration inside huge dataset and gives the scientist access to information that previously was hidden.It provides ...

Platform: WindowsGraphic Apps- CAD
License: FreewareSize: 32.7 MBReleased: 13 May, 2013
Download: http://www.expasy.org
Proteomics - Genomics - Structural Bioinformatics - Systems Biology
multiplierz 0.8.0multiplierz.sourceforge.net

Mass-spectrometry data analysis made easy. multiplierz provides a suite of tools that can be accessed via the desktop graphical user interface or through custom .mz scripts.multiplierz is an open-source Python-based environment that provides a scriptable framework for efficient access to manufacturers' proprietary data files via mzAPI. User-defined ...

Platform: WindowsGraphic Apps- Editors
License: FreewareSize: 63.1 MBReleased: 06 January, 2013
Download: http://blais.dfci.harvard.edu/multiplierz/
ChromA (Chromatogram Alignment) 0.9bibiserv.techfak.uni-bielefeld.de

Chromatogram Alignment for Chromatography-Mass Spectrometry is a web based tool for the alignment and visualization of data from Chromatography-Mass Spectrometry.Consider the case of a Metabolomics experiment, where you have measured the response of an organism's metabolome under different conditions. Now, you want to compare your data, noting, that ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 4.4 KBReleased: 28 January, 2013
Download: http://bibiserv.techfak.uni-bielefeld.de
MassWiz 1.7.0.1masswiz.sourceforge.net

MassWiz is a mass spectrometry search algorithm to help you with your work. Open Source Tandem Mass Spectrometry algorithm integrated with target-decoy based FDR analysis facility. Simple and Easy to use. Check out the wiki site for help and support.MassWiz Features:
1. proteomics
2. mass spectrometry
3. target-decoy search
4. FDR ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 9.5 MBReleased: 23 April, 2013
Download: http://masswiz.sourceforge.net
OpenMS 1.8OpenMS Developer Team

It offers an infrastructure for the development of mass spectrometry related software. OpenMS is free software available under the LGPL.
OpenMS will be compatible with the upcoming Proteomics Standard Initiative (PSI) formats for MS data. We also try hard to keep up to date with code documentation and making it easy to use OpenMS.

Platform: WindowsDevelopment- C / C++ / C#
License: FreewareSize: 82.1 MBReleased: 20 May, 2012
Download: http://sourceforge.net/projects/open-ms/files/OpenMS/OpenMS-1.8/OpenMS-1.8_Win32_setup.exe/download?use_mirror=superb-dca2
Spectral Simplicity 1.0Kisotopic Solutions

If you are involved in the qualitative determine of unknown small molecules by mass spectrometry then Spectral Simplicity will do the following things for you:

-Leverage the maximum qualitative power out of your instrument
-Apply a powerful statistical methodology
-Create a statistically valid conclusion from your data
...

Platform: WindowsGraphic Apps- Other
License: FreewareSize: 2.2 MBReleased: 19 June, 2012
Download: http://kisotopic.com/lib/downloads/SpectralSimplicity-10341.zip
PeptideART 2.1peptideart.sourceforge.net

PeptideART is a project to predict peptide fragmentation of mass spectrometry.Requirements:
* Java

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 13.8 MBReleased: 11 May, 2013
Download: http://peptideart.sourceforge.net
Mascot Wizard 1.2.0www.matrixscience.com

Mascot Wizard is a simple desktop tool that provides a drag and drop interface for submitting peptide mass fingerprint searches to a Mascot server. Internally, Mascot Wizard uses the Mascot Distiller libraries to process raw data files into high quality peak lists.Although you can only process one file at a time, everything is fully automated. However, ...

Platform: WindowsGraphic Apps- CAD
License: FreewareSize: 9.0 MBReleased: 31 March, 2013
Download: http://www.matrixscience.com
Mascot - Matrix Science - Mowse - Proteomics
Mascot Daemon 2.3Matrix Science

If you have several mass spectrometers, you can install separate copies of Daemon on each instrument data system or just have a single copy of Daemon somewhere on the LAN marshalling searches for all instruments.

The functional unit of Mascot Daemon is a task, which is defined by the data source (a list of data files or a file path), ...

Platform: WindowsHome & Hobby- Personal Interest
License: FreewareSize: 585.5 KBReleased: 03 February, 2012
Download: http://www.matrixscience.com/patches/MascotDaemon_20100721.exe
LipidXplorer 1.2.4 Betalipidxplorer.sourceforge.net

LipidXplorer is an uniqe program to identify lipids from high to low resolution mass spectra.Usage: mzWiff.exe [options] <wiff file path> [<output file>]
Information options=
-I"<str>" where str specifies the ionisation used
-T"<str>" where str specifies the mass spectrometry type
...

Platform: WindowsBusiness- Databases & Tools
License: FreewareSize: 1.6 MBReleased: 07 May, 2013
Download: http://lipidxplorer.sourceforge.net
QuadXL 1 1quadtechassociates.com

QuadXL is a simple free utility program for working with Excel files.

Platform: WindowsBusiness- Office Suites & Tools
License: FreewareSize: 356.9 KBReleased: 22 February, 2012
Download: http://www.quadtechassociates.com/media/4c7790d16d6e7626ffff8223ffffe41e.zip
Graph Extract 2 1quadtechassociates.com

Graph Extract is a program for digitizing plots. Using either manual or automated approaches, this program provides a means to easily extract numeric data from plots. The resulting X-Y data can be printed or replotted, or it can be saved in Excel file for

Platform: WindowsGraphic Apps- Other
License: FreewareSize: 446.0 KBReleased: 15 May, 2012
Download: http://quadtechassociates.com
ChemToolBox 1.0.1chemtoolbox.free.fr

ChemToolBox, the swiss army knife of the lab worker, is a freeware which contains numerous scientific data very useful in a laboratory. Thanks to its own database, ChemToolBox will easily substitute to the time-consuming use of scientific books (such as H

Platform: WindowsHome & Hobby- Other
License: FreewareSize: 11.1 MBReleased: 25 January, 2012
Download: http://chemtoolbox.free.fr/bin/chemtoolbox_uk_1.0.1.exe
REST 2008 2.0gene quantification

REST 2008 is a standalone software package for analyzing gene expression using real-time amplification data. The software addresses issues surrounding the measurement of uncertainty in expression ratios by introducing randomization and bootstrapping techniques. New confidence intervals for expression levels also allow measurement of not only the statistical ...

Platform: WindowsHome & Hobby- Personal Interest
License: FreewareSize: 70.5 MBReleased: 08 February, 2012
Download: http://www.gene-quantification.de/rest-2008.html
REST 2009 2.0Corbett Life Science, a QIAGEN Company.

REST 2009 Software is a standalone software tool, developed by M. Pfaffl (Technical University Munich) and QIAGEN, for analysis of gene expression data from quantitative real-time PCR experiments.
For gene expression analysis using real-time PCR data from the Rotor-Gene Q and other cyclers

Platform: WindowsHome & Hobby- Genealogy
License: FreewareSize: 0Released: 19 March, 2012
Download: http://www.gene-quantification.de/rest-2009.html
PRIDE Inspector 1.0.6pride-toolsuite.googlecode.com

The PRIDE database provides a publicly accessible, centralized data repository for mass spectrometry (MS) based proteomics data. PRIDE stores protein and peptide identifications, spectra and valuable metadata. PRIDE also allows data to remain private during peer review, while allowing optional access to collaborators, journal editors, and peer reviewers.

Platform: WindowsBusiness- Other
License: FreewareSize: 23.5 MBReleased: 02 May, 2013
Download: https://code.google.com/p/pride-toolsuite/
PRIDE Converter 2.4.7pride-converter.googlecode.com

PRIDE Converter converts mass spectrometry data from most common data formats into valid PRIDE XML for submission to the publicly available PRIDE database. It presents a handy, wizard-like graphical user interface, and includes efficient access to the Ontology Lookup Service (OLS).The currently supported formats are:
1. Mascot Dat Files
2.

Platform: WindowsBusiness- Databases & Tools
License: FreewareSize: 13.1 MBReleased: 22 March, 2013
Download: https://code.google.com/p/pride-converter/
Concatenated DTA to Mascot Generic File (MGF) File Converter 1.2.3912omics.pnl.gov

The MGF file format is a common text file format for listing peak lists of mass spectrometry data (lists of mass and intensity pairs), generally from MS/MS spectra.Requirements:
* .NET Framework.

Platform: WindowsSystem Utilities- File & Disk Management
License: FreewareSize: 208.0 KBReleased: 20 March, 2013
Download: http://omics.pnl.gov
Mascot Generic File (MGF) to .dta File Converter 1.1.3832omics.pnl.gov

Both formats (MGF and DTA) are common text file formats for listing peak lists of mass spectrometry data (lists of mass and intensity pairs), generally from MS/MS spectra.Requirements:
* .NET Framework

Platform: WindowsSystem Utilities- File & Disk Management
License: FreewareSize: 256.2 KBReleased: 17 April, 2013
Download: http://omics.pnl.gov
massXpert 2.9.0massxpert.org

For the software to be able to cope with a variety of possibly very di erent polymers, it had to be written using some abstraction layer in between the mass calculations engine and the mere description of the polymer sequence.The massXpert mass spectrometry program suite has been designed to be able to work with every linear polymer. Well, in a certain ...

Platform: WindowsBusiness- Calculators & Converters
License: FreewareSize: 5.8 MBReleased: 08 March, 2013
Download: http://wiki/
Mass Mailing News Free Edition 1.1.0.4Management-Ware Solutions

Mass Mailing News is one of the most proven customer email relationship management software for successful opt-in email marketing campaigns, subscriber lists building. It makes building your business easy with tools that cover every aspect of email marketing. Build your own opt-in contact lists, create and send email campaigns in just minutes. It's ...

Mass Mailing News Free Edition 1.1.0.4 by Management-Ware Solutions
Platform: Win98,  WinME,  WinXP,  Windows2000Communications- E-Mail List Management
License: FreewareSize: 26.3 MBReleased: 12 May, 2008
Download: http://www.management-ware.net/download/MassMailingNews/MassMailingNewsFUllSetup1001.exe
Mass Mailing - Newsletter - Bulk Email - E-Campaign
PHP Mass/Bulk Emailer 1 2UKLAHouse.com

PHP Mass/Bulk Emailer is a powerful PHP script that will allow you to send out large number of emails from your own server to the intended recipients safely. Key Features: - Powerful and secure web-based PHP auto mailer - No MySQL database needed, installation on your server can be done within 5 minutes using any FTP clients - Tested to be use safely ...

PHP Mass/Bulk Emailer 1 2 by UKLAHouse.com
Platform: WindowsCommunications- E-Mail List Management
License: FreewareSize: 25.0 KBReleased: 10 May, 2012
Download: http://www.uklahouse.com


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