Below, a list of useful applications for processing data from research, documents, images and other related management system is described.

For document and book editing in different formats:

LaTeX: Language to automatically prepare a document with standard appearance and high quality. LaTeX is a high quality writing system that includes features designed for the production of technical and scientific documentation.

Texmaker: An easy-to-use LaTeX editor, configure, intuitive and with a lot of predefined functions, facilitating users to use LaTeX.

LibreOffice: Set of office productivity applications. The office suite LibreOffice includes plugins for interaction with LaTeX.

kbibtex: BibTex Editor for managing bibliography in LaTeX. Search built which include major databases for searching scientific and academic articles: Google Scholar, ScienceDirect, IEEEXplore, ACM and others.

Bibus: Software for managing references databases. It is intuitive, easy to use, works with LibreOffice.org, OpenOffice.org (Linux, Windows, MacOS X) and MS Word (Windows).

Sigil: Cross-platform and open source EPUB Editor to create e-books. Supports EPUB files, html, images and style sheets.

Calibre: Library Manager for e-books and converter between different formats (EPUB, MOBI, AZW3, PDF and many others).

Kate: advanced text editor with split windows and multidocument interface. Allows automatic scripts identification and other useful features for program editing.

PDFSam: Tool to split and merge PDF documents.

For image and graphic editing :

Inkscape: Vector Graphics Editor that is fully compliant with XML, SVG, and CSS2 standards. It has capabilities similar to Illustrator, CorelDraw or Freehand.

Gimp: Digital images editor that can be used for professional photo retouching, simple drawing creation or as format converter.

Dia: Diagram editor for flowcharts, networks, etc.

Planner: Project Manager which allows you to generate Gantt charts. Tool for project management, including planning, monitoring and export to different formats.

For mathematical processing and simulation:

Scilab: High-level Math tool for scientific computing.

Octave: Mathematical analysis tool similar to Matlab commands.

NS-2: Discrete event network simulator research-oriented. NS-2 provides substantial support for simulation of TCP, routing, and multicast protocols over wired and wireless networks, both local and satellite.

For traffic analysis:

Wireshark: Powerful traffic analyzer with GUI or through command line.

Tcpdump: Tool for capturing network traffic in real time by command line.

Other important applications:

Eclipse: Eclipse Rich Client Platform, a suite of programming tools open source platform.

VirtualBox: Management environment platform for virtual machines. Excellent for running multiple operating systems on one computer.

keepassx: An application that secures the management of personal information such as passwords, names, comments and other information in an encrypted database using AES or Twofish 256-bit keys.

Backintime: Simple backup tool in Linux.