compomics/denovogui

Name: denovogui

Owner: Computational Omics and Systems Biology Group

Description: Graphical user interface for de novo sequencing of tandem mass spectra

Created: 2015-08-21 21:32:34.0

Updated: 2017-12-12 13:13:06.0

Pushed: 2017-09-06 13:14:16.0

Homepage: http://compomics.github.io/projects/denovogui.html

Size: 113540

Language: Java

GitHub Committers

User	Most Recent Commit	# Commits
Marc Vaudel	2017-02-10 10:53:29.0	134
Harald Barsnes	2017-09-06 13:14:15.0	257

Other Committers

User	Email	Most Recent Commit	# Commits
dominik.kopczynski	dominik.kopczynski@isas.de	2017-04-13 06:03:07.0	1
harald.barsnes	harald.barsnes@d7456372-3d09-dc9c-c65b-cffa522d2526	2015-08-11 13:55:29.0	236
mvaudel	mvaudel@d7456372-3d09-dc9c-c65b-cffa522d2526	2013-03-19 13:09:38.0	8
Thilo.Muth	thilo.muth@gmx.de	2014-02-25 14:56:20.0	34

README

DeNovoGUI

• Introduction

• Command Line

• Troubleshooting

• Bioinformatics for Proteomics Tutorial

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DeNovoGUI Publication:

• Muth at al: J Proteome Res. 2014 Feb 7;13(2):1143-6.
• If you use DeNovoGUI as part of a publication, please include this reference.

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Introduction

DeNovoGUI provides a user-friendly open-source graphical user interface for running the Novor, DirecTag, PepNovo+ and pNovo+ (beta) and de novo sequencing algorithms on Windows, Mac and Linux.

To start using DeNovoGUI, unzip the downloaded file, and double-click the DeNovoGUI-X.Y.Z.jar file. No additional installation required!

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Command Line

DeNovoGUI can also be used via the command line, see DeNovoCLI for details.

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Troubleshooting

Note that PepNovo+ is not supported on Linux 32 bit, pNovo+ is only supported on Windows, and that DirectTag is currently not supported on Mac (support is in development).

If you get problems running PepNovo+ on Linux (or OSX), please try the following: (1) install dos2unix, (2) run the following two commands inside the resources/PepNovo folder: dos2unix Models/*.* and dos2unix Models/*/*.*.

For problems related to Java, memory or startup issues, please see: Java Troubleshooting.

For other questions or suggestions please contact the developers of DeNovoGUI by setting up an Issue with your comment, or by sending an e-mail to the DeNovoGUI Google Group.

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